Note: Insertion ids mentioned in this report are for internal use (not linked to any database) and will change if the pipeline is re-run.

1 General figures

1.1 Filtering criteria

1.1.1 Lax criterion

Note: A “unique” insertion is the merged result after the allele-aware merging from both callers for each patient, and then merged across patients. If we were working with SNPs, a “unique” SNP would be, rs123, for example, defined by its position and alternative(s) allele(s). A unique insertion is defined by its position, length, and inserted sequence.

The analysis has identified:

  • 3 647 unique TE insertions, which amount to a total of 6 528 occurrences among all samples.
  • With any insertion appearing on 1.8 ± 0.41 samples (median of 2 occurrences/insertion).
  • The average insertion count per case is 3 264 ± 15.6.

1.1.2 Strict criterion

The stringent criterion (both callers) has left:

  • 2 534 TE insertions.
  • A total of 4 752 calls across cases.
  • A mean prevalence of 1.9 ± 0.33.
  • The median prevalence is 2.
  • Each sample carries an average of 2 376 ± 22.6 TE insertions.

1.2 Genotyping

  • 237 unique insertions that passed the stringent filtering. (9.4% of the total unique insertions), had at least one occurrence genotyped as 0/0.

  • These amount to 311 total count (6.5% of filter-passing occurrences).

  • 179 of these unique insertions were genotyped as 0/0 for all their occurrences, amounting to 253 insertion counts.

  • Of these fully wrong calls, 105 were only found on a single patient each (58.7% of the 179).

  • The strict criteria missed calls for 133 unique insertions (5.2%).

  • These mean a total of 133 occurrences, out of 4 752 calls that passed the stringent filter.

  • 133 unique insertions had more false negative occurrences than positive ones.

The discrepancies between genotyping and the lax filtering is also summarized in the table below.

Note: for true/false poitives/negatives, the genotypes have considered the gold standard.

Criterion

Unique INS with false positives (%)

Total false positives (%)

Unique INS (total) with all false positives

Unique INS with false negatives (%)

Total false negatives (Total positives)

Unique INS with more false negatives than positives

Strict

237
( 9.4)

311
(6.5)

179
(253)

133
(5.2)

133
(4 752)

133

Lax

692
(19.0)

920
(14.1)

597
(825)

0
(0.0)

0
(6 528)

0

The next sections only take into account insertions that passed the strict criterion on at least one sample, and that were not genotyped as 0/0 on all samples.

1.2.1 Allele frequency

1.2.2 Ubiquitous TE insertions

1.2.2.1 Ubiquitous TE insertions

821 TE insertions were found on all cases in homozygosis.

Click to show table with 821 rows.

Position

Length

Type

AF

chr1:1 477 853

133

SINE (AluSp)

1

chr1:1 993 703

145

SINE (FLAM_C)

1

chr1:6 715 538

39

Retroposon (SVA_D)

1

chr1:8 501 370

48

Retroposon (SVA_F)

1

chr1:9 170 366

317

SINE (AluY)

1

chr1:9 968 550

139

SINE (AluSx3)

1

chr1:13 658 369

125

Retroposon (SVA_F)

1

chr1:16 424 204

134

SINE (AluYk2)

1

chr1:17 868 629

65

DNA (MADE1)

1

chr1:21 166 095

315

SINE (AluYa5)

1

chr1:33 052 502

101

Retroposon (SVA_F)

1

chr1:37 967 098

314

SINE (AluY)

1

chr1:44 876 572

397

Retroposon (SVA_E)

1

chr1:46 242 226

47

Retroposon (SVA_F)

1

chr1:51 711 474

317

Retroposon (SVA_A)

1

chr1:52 869 959

98

Retroposon (SVA_F)

1

chr1:64 201 483

273

Retroposon (SVA_E)

1

chr1:64 492 377

342

SINE (AluY)

1

chr1:69 465 246

36

LINE (L1P3)

1

chr1:69 625 372

326

SINE (AluYa5)

1

chr1:74 989 508

40

LINE (L1P1)

1

chr1:80 703 232

65

LINE (L1P2)

1

chr1:81 846 355

322

SINE (AluYb8)

1

chr1:90 891 771

48

Retroposon (SVA_F)

1

chr1:92 701 961

323

SINE (AluYa5)

1

chr1:93 032 654

332

SINE (AluYa5)

1

chr1:97 252 071

324

SINE (AluYk3)

1

chr1:100 528 653

328

SINE (AluYb9)

1

chr1:100 819 211

509

LINE (L1M5)

1

chr1:103 272 219

96

LTR (HERVL-int)

1

chr1:104 511 448

318

SINE (AluYa5)

1

chr1:104 688 480

134

SINE (AluY)

1

chr1:108 675 986

158

Retroposon (SVA_A)

1

chr1:117 430 030

174

Retroposon (SVA_F)

1

chr1:120 402 187

29

SINE (Alu)

1

chr1:125 013 223

222

LINE (L1PA3)

1

chr1:147 949 446

117

Retroposon (SVA_F)

1

chr1:149 920 127

340

SINE (AluY)

1

chr1:151 769 291

90

Retroposon (SVA_F)

1

chr1:156 328 044

140

Retroposon (SVA_F)

1

chr1:159 449 987

90

Retroposon (SVA_C)

1

chr1:162 791 517

316

SINE (AluYa5)

1

chr1:169 391 853

42

LTR (PABL_A)

1

chr1:169 993 600

163

SINE (AluSz)

1

chr1:172 571 914

354

Retroposon (SVA_F)

1

chr1:179 522 822

352

SINE (AluYb9)

1

chr1:180 888 412

320

SINE (AluYa5)

1

chr1:188 469 075

304

SINE (AluY)

1

chr1:191 611 634

324

SINE (AluYa5)

1

chr1:194 705 994

328

SINE (AluY)

1

chr1:196 184 399

331

SINE (AluYb8)

1

chr1:196 792 226

323

SINE (AluYb8)

1

chr1:196 810 057

129

SINE (AluYa5)

1

chr1:203 919 175

225

Retroposon (SVA_F)

1

chr1:214 869 357

95

Retroposon (SVA_F)

1

chr1:220 466 556

97

Retroposon (SVA_F)

1

chr1:222 697 340

328

SINE (AluYb8)

1

chr1:228 824 170

324

SINE (AluYk2)

1

chr1:235 635 569

167

LTR (MSTB)

1

chr1:239 971 543

326

SINE (AluYa5)

1

chr1:241 326 641

326

SINE (AluYb8)

1

chr1:245 826 009

324

SINE (AluSx3)

1

chr1:248 911 737

126

Retroposon (SVA_F)

1

chr2:1 199 165

306

SINE (AluY)

1

chr2:1 467 941

329

SINE (AluY)

1

chr2:2 295 538

173

LTR (HERVIP10FH-int)

1

chr2:3 591 088

128

Retroposon (SVA_F)

1

chr2:9 748 659

324

SINE (AluYb8)

1

chr2:11 286 233

324

SINE (AluY)

1

chr2:15 379 414

312

SINE (AluY)

1

chr2:15 541 819

152

Retroposon (SVA_F)

1

chr2:21 573 937

297

SINE (AluYd8)

1

chr2:27 539 883

126

Retroposon (SVA_F)

1

chr2:31 336 815

310

SINE (AluYa5)

1

chr2:31 727 126

318

SINE (AluYa5)

1

chr2:43 063 211

39

Retroposon (SVA_F)

1

chr2:44 598 695

316

SINE (AluYa5)

1

chr2:46 701 810

298

SINE (AluYa5)

1

chr2:48 555 313

47

Retroposon (SVA_F)

1

chr2:50 375 490

328

SINE (AluYb8)

1

chr2:54 446 445

320

SINE (AluY)

1

chr2:63 552 086

325

SINE (AluYb8)

1

chr2:64 872 901

329

SINE (AluYb8)

1

chr2:65 106 650

304

SINE (AluYc)

1

chr2:66 431 844

325

SINE (AluYe5)

1

chr2:75 160 770

314

SINE (AluY)

1

chr2:76 030 574

233

SINE (AluYb8)

1

chr2:80 541 884

269

SINE (AluYa5)

1

chr2:84 501 628

312

SINE (AluYg6)

1

chr2:84 608 279

36

DNA (Tigger1)

1

chr2:85 488 315

77

Retroposon (SVA_F)

1

chr2:87 180 576

493

LINE (L1HS)

1

chr2:105 836 109

316

SINE (AluYf1)

1

chr2:105 969 153

321

SINE (AluYa5)

1

chr2:111 283 808

329

SINE (AluYa5)

1

chr2:113 395 042

127

Retroposon (SVA_F)

1

chr2:127 981 347

120

LTR (LTR21B)

1

chr2:137 419 374

101

SINE (AluY)

1

chr2:137 419 414

60

SINE (AluYb8)

1

chr2:151 875 949

48

Retroposon (SVA_F)

1

chr2:152 391 750

328

SINE (AluYg6)

1

chr2:153 896 067

331

SINE (AluYa5)

1

chr2:161 095 804

300

SINE (AluSx)

1

chr2:171 866 581

402

Retroposon (SVA_A)

1

chr2:174 871 203

318

SINE (AluYa5)

1

chr2:177 453 984

333

SINE (AluYb8)

1

chr2:177 486 724

340

SINE (AluY)

1

chr2:188 711 105

90

LTR (MER11B)

1

chr2:190 430 797

94

Retroposon (SVA_F)

1

chr2:191 975 312

330

SINE (AluYb8)

1

chr2:192 131 143

119

LTR (HERVH-int)

1

chr2:197 898 723

311

SINE (AluY)

1

chr2:202 534 992

49

Retroposon (SVA_F)

1

chr2:214 336 906

323

SINE (AluYb8)

1

chr2:215 683 694

326

SINE (AluYb8)

1

chr2:217 316 033

304

SINE (AluYb8)

1

chr2:221 579 730

36

SINE (AluSg4)

1

chr2:229 743 530

96

Retroposon (SVA_F)

1

chr2:231 558 287

318

SINE (AluYk2)

1

chr2:232 905 863

48

Retroposon (SVA_F)

1

chr3:4 163 465

314

SINE (AluYa5)

1

chr3:10 070 465

208

Retroposon (SVA_F)

1

chr3:11 487 519

522

Retroposon (SVA_F)

1

chr3:12 095 537

325

SINE (AluY)

1

chr3:18 993 945

331

SINE (AluY)

1

chr3:25 249 858

71

LINE (L1M2)

1

chr3:28 665 552

268

SINE (AluY)

1

chr3:31 839 889

327

SINE (AluYb8)

1

chr3:35 469 102

65

LTR (LTR12_v)

1

chr3:48 483 715

47

Retroposon (SVA_F)

1

chr3:50 841 730

331

SINE (AluYb8)

1

chr3:51 249 632

77

Retroposon (SVA_D)

1

chr3:75 289 661

222

Retroposon (SVA_F)

1

chr3:79 502 727

40

LTR (LTR12C)

1

chr3:80 915 723

308

SINE (AluYb8)

1

chr3:83 254 913

136

SINE (AluYk2)

1

chr3:87 471 316

279

SINE (AluYa5)

1

chr3:91 345 076

143

LTR (MLT1D)

1

chr3:95 745 261

47

Retroposon (SVA_B)

1

chr3:103 734 535

312

SINE (AluYa5)

1

chr3:106 111 381

456

Retroposon (SVA_F)

1

chr3:106 508 513

28

DNA (HSMAR2)

1

chr3:107 335 062

34

LINE (L1HS)

1

chr3:111 444 270

31

LINE (L1P3)

1

chr3:112 205 623

49

LINE (L1P3)

1

chr3:117 050 497

39

Retroposon (SVA_D)

1

chr3:124 922 697

135

SINE (AluSx)

1

chr3:128 676 364

312

SINE (AluYe5)

1

chr3:130 219 573

318

SINE (AluYe5)

1

chr3:136 893 195

105

LINE (L1P5)

1

chr3:143 475 998

314

SINE (AluYa5)

1

chr3:151 664 878

77

LTR (HERV9N-int)

1

chr3:151 820 689

171

SINE (AluYa5)

1

chr3:153 444 920

150

SINE (AluY)

1

chr3:157 848 540

37

SINE (Alu)

1

chr3:166 644 514

340

SINE (AluYa5)

1

chr3:166 672 433

312

SINE (AluY)

1

chr3:174 692 945

321

SINE (AluYb8)

1

chr3:176 373 528

154

LINE (L1HS)

1

chr3:176 425 229

305

SINE (AluYa5)

1

chr3:178 393 249

329

SINE (AluYb8)

1

chr3:182 153 141

129

LINE (L1P3)

1

chr3:197 823 074

31

SINE (Alu)

1

chr3:197 847 677

57

DNA (MADE1)

1

chr4:550 879

267

Retroposon (SVA_A)

1

chr4:1 308 027

317

SINE (AluYk2)

1

chr4:1 319 643

132

SINE (AluJb)

1

chr4:4 357 815

132

LINE (L1MB3)

1

chr4:9 449 339

137

LINE (L1M3)

1

chr4:13 761 218

145

Retroposon (SVA_E)

1

chr4:14 955 276

114

LTR (MSTB)

1

chr4:15 615 466

237

LTR (LTR12C)

1

chr4:31 839 792

308

SINE (AluYg6)

1

chr4:40 074 275

36

SINE (AluSx4)

1

chr4:42 086 022

315

SINE (AluYa5)

1

chr4:43 397 964

337

SINE (AluY)

1

chr4:43 846 679

39

LTR (LTR12E)

1

chr4:45 208 622

111

Retroposon (SVA_A)

1

chr4:46 378 053

292

Retroposon (SVA_F)

1

chr4:47 494 499

314

SINE (AluYb8)

1

chr4:47 542 099

333

SINE (AluY)

1

chr4:52 081 944

147

LINE (L3)

1

chr4:52 465 599

47

Retroposon (SVA_F)

1

chr4:54 154 800

160

LTR (LTR12C)

1

chr4:54 993 952

159

LTR (LTR12C)

1

chr4:63 062 067

184

LTR (LTR12E)

1

chr4:66 240 879

318

SINE (AluYa5)

1

chr4:67 098 159

309

SINE (AluY)

1

chr4:85 583 924

72

LINE (L1HS)

1

chr4:85 877 580

34

SINE (Alu)

1

chr4:98 046 002

54

LINE (L1M3de)

1

chr4:103 823 449

303

SINE (AluYa5)

1

chr4:106 399 078

63

LINE (L1M4c)

1

chr4:109 597 329

95

Retroposon (SVA_F)

1

chr4:109 597 452

98

Retroposon (SVA_F)

1

chr4:114 628 762

317

SINE (AluYb8)

1

chr4:118 853 560

317

SINE (AluYa5)

1

chr4:120 661 088

326

SINE (AluYb8)

1

chr4:124 026 067

292

SINE (AluYb8)

1

chr4:134 001 190

306

SINE (AluYb9)

1

chr4:134 209 110

327

SINE (AluY)

1

chr4:136 885 359

139

SINE (AluYa5)

1

chr4:141 691 101

48

LTR (THE1D)

1

chr4:147 132 785

324

SINE (AluY)

1

chr4:150 660 237

97

Retroposon (SVA_F)

1

chr4:150 953 967

79

Retroposon (SVA_A)

1

chr4:151 214 784

126

Retroposon (SVA_F)

1

chr4:159 524 187

126

Retroposon (SVA_F)

1

chr4:163 836 593

223

SINE (AluY)

1

chr4:170 166 495

36

Retroposon (SVA_D)

1

chr4:170 507 632

316

SINE (AluY)

1

chr4:174 290 427

311

SINE (AluYe5)

1

chr4:175 181 019

62

LINE (L1PREC2)

1

chr4:178 277 156

320

SINE (AluYa5)

1

chr4:183 736 102

49

Retroposon (SVA_D)

1

chr4:188 393 872

314

SINE (AluY)

1

chr4:189 108 732

54

LTR (MER57-int)

1

chr4:189 404 991

71

LTR (MST-int)

1

chr4:189 484 408

60

LTR (HERVH-int)

1

chr4:189 508 192

151

LINE (L1M4)

1

chr5:1 585 386

314

SINE (AluY)

1

chr5:1 586 019

38

Retroposon (SVA_D)

1

chr5:1 812 525

311

SINE (AluYa5)

1

chr5:4 075 719

319

SINE (AluYa5)

1

chr5:5 595 126

305

SINE (AluYe5)

1

chr5:16 277 322

38

Retroposon (SVA_D)

1

chr5:16 716 503

310

SINE (AluYg6)

1

chr5:17 024 109

183

SINE (AluSx)

1

chr5:17 712 495

332

SINE (AluY)

1

chr5:20 471 978

279

LINE (L2a)

1

chr5:34 113 145

321

SINE (AluYa5)

1

chr5:54 087 760

65

SINE (AluYk2)

1

chr5:55 433 459

334

SINE (AluYb8)

1

chr5:55 569 961

319

SINE (AluY)

1

chr5:55 696 695

293

Retroposon (SVA_A)

1

chr5:56 632 138

309

SINE (AluYa5)

1

chr5:62 339 522

310

SINE (AluY)

1

chr5:64 476 133

47

LINE (L1P2)

1

chr5:65 940 635

48

Retroposon (SVA_F)

1

chr5:69 515 538

96

Retroposon (SVA_F)

1

chr5:77 043 481

48

Retroposon (SVA_F)

1

chr5:77 395 389

313

SINE (AluY)

1

chr5:77 794 938

47

Retroposon (SVA_F)

1

chr5:84 943 815

680

LINE (L1HS)

1

chr5:87 076 864

295

SINE (AluYa5)

1

chr5:113 935 587

78

LTR (LTR62)

1

chr5:115 404 023

289

SINE (AluYe5)

1

chr5:117 973 457

176

LTR (MST-int)

1

chr5:134 427 214

300

SINE (AluYa5)

1

chr5:149 537 753

323

SINE (AluYa5)

1

chr5:151 982 651

48

LINE (L1PBa)

1

chr5:155 060 117

42

LINE (L1P1)

1

chr5:159 290 155

314

SINE (AluYa5)

1

chr5:162 804 935

314

SINE (AluY)

1

chr5:178 458 165

62

LINE (L1MC5)

1

chr6:1 051 552

186

LTR (MSTC)

1

chr6:7 441 878

81

LTR (LTR12D)

1

chr6:11 896 739

37

LINE (L1MC)

1

chr6:13 521 017

329

SINE (AluYb8)

1

chr6:18 346 153

309

SINE (AluYa5)

1

chr6:19 940 517

400

Retroposon (SVA_F)

1

chr6:31 329 004

343

SINE (AluSx)

1

chr6:32 547 335

86

LTR (LTR12C)

1

chr6:32 719 390

314

SINE (AluY)

1

chr6:32 720 800

332

SINE (AluYe5)

1

chr6:32 805 657

314

SINE (AluYa5)

1

chr6:34 398 194

150

Retroposon (SVA_F)

1

chr6:37 000 766

324

SINE (AluYb8)

1

chr6:43 927 736

316

SINE (AluY)

1

chr6:49 487 167

104

LINE (L1MC5)

1

chr6:52 969 272

73

SINE (AluSq2)

1

chr6:53 744 881

282

SINE (AluY)

1

chr6:60 676 390

42

LTR (MLT1G1)

1

chr6:62 587 058

43

LTR (HERVH-int)

1

chr6:63 052 338

84

LINE (L1PREC2)

1

chr6:67 072 446

314

SINE (AluYb8)

1

chr6:68 932 874

326

SINE (AluYk2)

1

chr6:77 679 471

38

DNA (Tigger3c)

1

chr6:81 587 704

321

SINE (AluY)

1

chr6:82 633 657

57

LINE (L1P1)

1

chr6:85 220 081

101

LINE (L1M1)

1

chr6:96 497 728

68

LINE (L1P3)

1

chr6:96 569 793

322

SINE (AluYb8)

1

chr6:96 639 702

96

LINE (L1P1)

1

chr6:99 650 398

39

Retroposon (SVA_F)

1

chr6:102 510 590

315

SINE (AluYa5)

1

chr6:107 078 566

137

SINE (AluY)

1

chr6:107 803 221

36

Retroposon (SVA_D)

1

chr6:114 768 706

105

SINE (AluSc)

1

chr6:120 247 099

318

SINE (AluYk2)

1

chr6:121 840 534

102

LINE (L2a)

1

chr6:122 848 426

175

Retroposon (SVA_F)

1

chr6:130 952 342

320

SINE (AluYb8)

1

chr6:136 151 778

70

SINE (AluSg)

1

chr6:136 933 052

277

SINE (AluYa5)

1

chr6:141 449 731

318

SINE (AluYa5)

1

chr6:143 630 226

311

SINE (AluYa5)

1

chr6:146 455 384

60

LTR (HERVH-int)

1

chr6:163 393 182

319

SINE (AluYe6)

1

chr6:166 711 308

318

SINE (AluYb9)

1

chr6:170 185 527

330

SINE (AluY)

1

chr7:6 904 658

58

LTR (HERVH-int)

1

chr7:10 465 285

225

Retroposon (SVA_A)

1

chr7:23 851 399

60

LTR (MSTA)

1

chr7:26 148 247

92

Retroposon (SVA_F)

1

chr7:26 148 327

94

Retroposon (SVA_F)

1

chr7:37 797 033

310

SINE (AluYe5)

1

chr7:38 720 097

322

SINE (AluYb8)

1

chr7:39 710 092

331

SINE (AluYb8)

1

chr7:42 608 043

321

SINE (AluYa5)

1

chr7:44 992 612

202

Retroposon (SVA_A)

1

chr7:45 749 603

323

SINE (AluYa5)

1

chr7:51 899 407

47

LTR (MLT1A0)

1

chr7:54 640 676

60

SINE (Alu)

1

chr7:55 783 652

304

SINE (AluY)

1

chr7:56 177 209

321

SINE (AluYb8)

1

chr7:64 419 799

324

SINE (AluY)

1

chr7:64 809 487

125

Retroposon (SVA_F)

1

chr7:67 889 013

38

Retroposon (SVA_D)

1

chr7:71 737 530

106

LTR (LTR12C)

1

chr7:74 809 479

193

SINE (AluYa5)

1

chr7:76 937 894

318

SINE (AluY)

1

chr7:77 509 892

591

Retroposon (SVA_F)

1

chr7:77 533 994

174

Retroposon (SVA_F)

1

chr7:81 043 607

40

LTR (LTR12C)

1

chr7:83 460 624

62

LTR (HERVH-int)

1

chr7:84 299 804

69

SINE (FLAM_C)

1

chr7:95 149 736

327

SINE (AluYb8)

1

chr7:101 359 188

222

Retroposon (SVA_A)

1

chr7:109 017 025

51

LINE (L1PREC2)

1

chr7:109 643 279

326

SINE (AluYb8)

1

chr7:110 844 692

96

LINE (L1HS)

1

chr7:114 192 099

48

SINE (AluSg)

1

chr7:128 289 264

315

SINE (AluYi6)

1

chr7:128 553 002

33

SINE (AluSq)

1

chr7:128 577 275

307

Retroposon (SVA_B)

1

chr7:129 517 319

317

SINE (AluSx3)

1

chr7:131 224 137

144

SINE (AluJb)

1

chr7:132 166 350

328

SINE (AluY)

1

chr7:136 494 045

329

SINE (AluYe5)

1

chr7:136 576 160

316

LTR (HERVL-int)

1

chr7:138 735 865

42

SINE (AluSz)

1

chr7:139 101 477

378

Retroposon (SVA_A)

1

chr7:150 506 304

47

Retroposon (SVA_F)

1

chr7:152 540 441

130

SINE (AluSx)

1

chr7:155 066 495

317

SINE (AluYk2)

1

chr7:155 096 901

73

Retroposon (SVA_B)

1

chr7:158 309 264

32

LTR (MLT2A2)

1

chr8:2 089 226

44

SINE (Alu)

1

chr8:4 595 369

94

LINE (L1HS)

1

chr8:6 196 794

91

LINE (L1P2)

1

chr8:9 153 996

48

Retroposon (SVA_F)

1

chr8:9 950 379

323

SINE (AluYb8)

1

chr8:13 059 195

154

SINE (AluSx4)

1

chr8:16 245 296

275

SINE (AluYa5)

1

chr8:22 625 878

328

SINE (AluY)

1

chr8:25 315 133

299

SINE (AluYa5)

1

chr8:33 904 132

284

SINE (AluY)

1

chr8:35 211 503

307

SINE (AluYa5)

1

chr8:41 412 941

334

SINE (AluYb8)

1

chr8:43 179 659

97

Retroposon (SVA_F)

1

chr8:54 125 422

223

Retroposon (SVA_F)

1

chr8:61 752 520

101

Retroposon (SVA_F)

1

chr8:64 686 416

77

Retroposon (SVA_F)

1

chr8:68 069 556

328

SINE (AluYb8)

1

chr8:69 245 774

39

Retroposon (SVA_E)

1

chr8:71 293 804

324

SINE (AluYa5)

1

chr8:74 463 097

317

SINE (AluYa5)

1

chr8:84 525 028

307

SINE (AluYa5)

1

chr8:86 067 390

320

SINE (AluYb8)

1

chr8:86 583 027

33

SINE (Alu)

1

chr8:86 807 595

35

LINE (L1PA4)

1

chr8:86 964 152

73

LTR (MER52-int)

1

chr8:97 447 378

31

SINE (Alu)

1

chr8:106 195 649

311

SINE (AluYb9)

1

chr8:107 110 857

72

SINE (AluY)

1

chr8:123 667 928

319

SINE (AluYa5)

1

chr8:124 877 714

282

SINE (AluYa5)

1

chr8:128 825 943

177

Retroposon (SVA_F)

1

chr8:131 341 813

323

SINE (AluYa5)

1

chr8:134 867 666

112

LINE (L3)

1

chr8:135 771 732

39

LTR (HERVH-int)

1

chr8:138 313 721

312

SINE (AluY)

1

chr8:140 037 950

330

SINE (AluYa5)

1

chr8:140 501 180

189

LINE (L2)

1

chr8:140 950 042

69

LTR (MER52A)

1

chr9:848 895

334

SINE (AluYb9)

1

chr9:2 351 286

315

SINE (AluY)

1

chr9:7 852 522

327

SINE (AluYb9)

1

chr9:8 102 217

79

LINE (L1P4)

1

chr9:15 234 394

125

Retroposon (SVA_F)

1

chr9:16 977 542

38

Retroposon (SVA_F)

1

chr9:19 365 709

95

SINE (AluYa5)

1

chr9:21 127 605

29

LINE (L1P1)

1

chr9:22 288 707

335

SINE (AluYk2)

1

chr9:26 492 841

36

Retroposon (SVA_F)

1

chr9:28 195 374

312

SINE (AluYa5)

1

chr9:28 960 602

322

SINE (AluY)

1

chr9:31 796 037

43

LINE (L1M3)

1

chr9:34 115 379

299

SINE (AluY)

1

chr9:34 169 254

117

SINE (AluJb)

1

chr9:34 904 794

102

LINE (L1PB)

1

chr9:35 018 978

63

LINE (L1PA10)

1

chr9:62 603 942

325

SINE (AluY)

1

chr9:67 083 505

299

SINE (AluY)

1

chr9:70 974 307

132

SINE (AluY)

1

chr9:72 616 616

313

SINE (AluY)

1

chr9:74 197 755

61

Retroposon (SVA_F)

1

chr9:90 432 247

306

SINE (AluY)

1

chr9:94 147 772

315

SINE (AluYa5)

1

chr9:100 667 656

68

LTR (MER52A)

1

chr9:112 514 852

225

Retroposon (SVA_B)

1

chr9:120 292 891

315

SINE (AluYk2)

1

chr9:121 971 181

299

Retroposon (SVA_E)

1

chr9:123 802 496

79

LINE (L2)

1

chr9:125 458 887

432

Retroposon (SVA_E)

1

chr9:125 577 664

257

Retroposon (SVA_F)

1

chr9:125 623 758

47

Retroposon (SVA_F)

1

chr9:129 514 654

70

LTR (MER52A)

1

chr9:131 370 206

65

SINE (Alu)

1

chr10:5 032 219

84

LTR (LTR12C)

1

chr10:6 206 499

76

Retroposon (SVA_F)

1

chr10:6 206 834

110

Retroposon (SVA_D)

1

chr10:8 869 284

492

Retroposon (SVA_F)

1

chr10:9 469 017

323

SINE (AluYa5)

1

chr10:17 950 565

117

LTR (LTR12D)

1

chr10:25 756 474

208

LTR (LTR12E)

1

chr10:27 640 988

319

SINE (AluYb8)

1

chr10:28 813 597

315

SINE (AluYa5)

1

chr10:28 816 354

312

SINE (AluY)

1

chr10:30 607 170

125

SINE (AluSx)

1

chr10:36 304 692

319

SINE (AluY)

1

chr10:39 479 348

341

LINE (L1P1)

1

chr10:52 707 167

322

SINE (AluY)

1

chr10:53 046 194

313

SINE (AluYe5)

1

chr10:55 002 597

62

LTR (LOR1-int)

1

chr10:60 365 085

294

SINE (AluYb8)

1

chr10:62 928 956

39

Retroposon (SVA_A)

1

chr10:66 576 999

327

SINE (AluY)

1

chr10:67 842 647

35

LTR (MSTB2)

1

chr10:68 235 132

326

SINE (AluYb8)

1

chr10:69 850 406

317

SINE (AluY)

1

chr10:69 992 832

491

Retroposon (SVA_E)

1

chr10:70 239 931

110

Retroposon (SVA_A)

1

chr10:71 869 465

123

Retroposon (SVA_F)

1

chr10:71 869 977

39

Retroposon (SVA_C)

1

chr10:71 902 232

313

SINE (AluYa5)

1

chr10:75 333 727

146

Retroposon (SVA_C)

1

chr10:88 055 211

319

SINE (AluYa5)

1

chr10:92 674 642

127

Retroposon (SVA_F)

1

chr10:92 975 822

224

Retroposon (SVA_A)

1

chr10:99 625 138

101

LTR (LTR12)

1

chr10:102 036 205

141

Retroposon (SVA_F)

1

chr10:104 057 438

192

SINE (AluYb8)

1

chr10:107 231 509

321

SINE (AluYa5)

1

chr10:108 693 707

833

LINE (L1HS)

1

chr10:112 314 098

311

SINE (AluY)

1

chr10:119 261 053

48

Retroposon (SVA_F)

1

chr10:120 215 110

392

Retroposon (SVA_F)

1

chr10:122 976 472

318

SINE (AluY)

1

chr11:428 013

320

SINE (AluYe5)

1

chr11:696 721

134

SINE (AluJb)

1

chr11:2 238 145

60

LTR (ERVL-B4-int)

1

chr11:2 332 518

39

Retroposon (SVA_B)

1

chr11:3 246 565

142

SINE (AluYa5)

1

chr11:5 114 182

178

LINE (L1P3)

1

chr11:5 194 322

40

LTR (LTR12E)

1

chr11:13 791 469

335

SINE (AluYb9)

1

chr11:19 860 077

224

Retroposon (SVA_E)

1

chr11:20 548 707

323

Retroposon (SVA_E)

1

chr11:25 583 576

324

SINE (AluYb8)

1

chr11:37 684 733

313

SINE (AluYa5)

1

chr11:38 779 509

315

SINE (AluYa5)

1

chr11:41 072 278

87

DNA (Tigger1)

1

chr11:45 738 485

275

Retroposon (SVA_E)

1

chr11:47 429 529

41

SINE (AluJb)

1

chr11:48 911 556

313

SINE (AluY)

1

chr11:59 645 320

382

Retroposon (SVA_E)

1

chr11:61 377 728

311

SINE (AluYk12)

1

chr11:63 893 356

258

LINE (L1MB8)

1

chr11:65 239 594

127

Retroposon (SVA_F)

1

chr11:67 655 021

311

SINE (AluY)

1

chr11:68 301 828

132

SINE (AluY)

1

chr11:74 066 263

47

LINE (L1PA5)

1

chr11:74 353 855

75

Retroposon (SVA_C)

1

chr11:77 098 714

222

Retroposon (SVA_D)

1

chr11:77 490 293

47

Retroposon (SVA_F)

1

chr11:81 124 396

30

LTR (HERVH-int)

1

chr11:89 175 768

323

SINE (AluYa5)

1

chr11:90 267 331

185

LINE (L1P3)

1

chr11:91 420 412

167

SINE (AluYc)

1

chr11:95 135 520

42

SINE (Alu)

1

chr11:95 320 834

49

Retroposon (SVA_F)

1

chr11:95 321 129

50

Retroposon (SVA_F)

1

chr11:98 770 105

208

Retroposon (SVA_C)

1

chr11:103 330 537

322

SINE (AluYb8)

1

chr11:104 194 493

204

Retroposon (SVA_E)

1

chr11:104 274 010

317

SINE (AluYa5)

1

chr11:106 173 850

314

SINE (AluYa5)

1

chr11:106 195 313

136

SINE (AluSq)

1

chr11:106 299 739

332

SINE (AluY)

1

chr11:111 211 677

42

LINE (L1MC)

1

chr11:116 130 885

191

LTR (HERVIP10FH-int)

1

chr11:119 253 538

265

Retroposon (SVA_B)

1

chr11:125 863 462

331

Retroposon (SVA_F)

1

chr11:127 871 039

289

SINE (AluYb8)

1

chr11:131 308 276

134

SINE (AluSz)

1

chr11:134 435 746

316

LINE (L1HS)

1

chr12:676 192

133

SINE (AluYk2)

1

chr12:1 543 322

423

SINE (AluY)

1

chr12:4 661 707

310

SINE (AluYg6)

1

chr12:5 660 425

298

SINE (AluYd8)

1

chr12:9 216 628

311

SINE (AluY)

1

chr12:9 349 116

79

Retroposon (SVA_A)

1

chr12:10 081 587

318

SINE (AluY)

1

chr12:10 525 737

326

LTR (LTR57-int)

1

chr12:14 020 934

310

SINE (AluYa5)

1

chr12:25 309 997

327

SINE (AluY)

1

chr12:26 784 936

38

Retroposon (SVA_D)

1

chr12:29 670 962

312

SINE (AluYa5)

1

chr12:31 923 477

315

SINE (AluYg6)

1

chr12:32 098 864

144

SINE (AluSx)

1

chr12:38 330 463

92

Retroposon (SVA_C)

1

chr12:48 332 467

196

Retroposon (SVA_E)

1

chr12:48 500 576

214

Retroposon (SVA_F)

1

chr12:49 788 823

85

SINE (AluY)

1

chr12:53 354 590

319

SINE (AluY)

1

chr12:56 558 296

304

SINE (AluSx)

1

chr12:57 665 178

155

Retroposon (SVA_A)

1

chr12:64 029 802

87

SINE (AluSz6)

1

chr12:64 204 038

84

LINE (L1PA11)

1

chr12:64 783 846

187

SINE (AluSp)

1

chr12:71 131 684

320

SINE (AluYb9)

1

chr12:71 725 885

27

DNA (HSMAR2)

1

chr12:75 537 304

316

SINE (AluYg6)

1

chr12:78 605 707

305

SINE (AluYb8)

1

chr12:83 692 332

322

SINE (AluYb8)

1

chr12:85 929 669

315

SINE (AluYg6)

1

chr12:86 811 026

109

LINE (L1MD)

1

chr12:87 477 038

320

SINE (AluY)

1

chr12:87 944 381

306

SINE (AluYa5)

1

chr12:92 118 740

28

DNA (HSMAR2)

1

chr12:94 868 527

218

DNA (Tigger1)

1

chr12:95 907 463

50

Retroposon (SVA_F)

1

chr12:100 294 427

196

Retroposon (SVA_E)

1

chr12:104 923 205

186

SINE (AluYb9)

1

chr12:106 209 872

284

LINE (L1P3)

1

chr12:125 036 157

161

Retroposon (SVA_C)

1

chr12:127 906 519

114

LINE (L1M5)

1

chr12:129 970 499

315

SINE (AluY)

1

chr12:132 789 701

56

SINE (AluYc3)

1

chr13:19 251 656

416

LINE (L1PBa)

1

chr13:19 779 535

47

Retroposon (SVA_F)

1

chr13:21 915 650

216

LINE (L1HS)

1

chr13:22 859 015

46

Retroposon (SVA_F)

1

chr13:26 242 116

315

SINE (AluY)

1

chr13:26 806 342

186

Retroposon (SVA_A)

1

chr13:37 215 551

165

SINE (AluSx)

1

chr13:39 789 556

27

LTR (LTR10F)

1

chr13:40 955 542

97

Retroposon (SVA_F)

1

chr13:41 881 714

126

Retroposon (SVA_A)

1

chr13:42 141 027

28

LINE (L1PA5)

1

chr13:42 476 441

73

Retroposon (SVA_A)

1

chr13:42 688 562

236

SINE (AluY)

1

chr13:46 521 202

318

SINE (AluYa5)

1

chr13:51 077 923

38

Retroposon (SVA_C)

1

chr13:55 612 425

323

SINE (AluYk2)

1

chr13:57 014 879

114

SINE (AluY)

1

chr13:58 046 916

290

SINE (AluYb9)

1

chr13:58 773 222

85

LTR (LTR12C)

1

chr13:58 822 744

315

SINE (AluYg6)

1

chr13:60 037 032

130

LINE (L1MEd)

1

chr13:62 146 931

309

SINE (AluYa5)

1

chr13:68 249 657

107

SINE (AluJb)

1

chr13:78 077 535

314

SINE (AluYa5)

1

chr13:78 697 449

316

SINE (AluYm1)

1

chr13:86 740 689

288

SINE (AluYa5)

1

chr13:87 043 983

255

SINE (AluYe5)

1

chr13:89 749 575

326

SINE (AluYb8)

1

chr13:90 291 100

57

LTR (HERVP71A-int)

1

chr13:91 609 018

322

SINE (AluYg6)

1

chr13:91 861 711

295

SINE (AluYa5)

1

chr13:92 538 791

212

LINE (L1P3)

1

chr13:93 176 152

301

SINE (AluYa5)

1

chr13:99 430 356

319

SINE (AluY)

1

chr13:105 062 568

288

SINE (AluYb8)

1

chr13:107 887 391

62

LTR (MSTA)

1

chr13:112 866 638

313

SINE (AluYa5)

1

chr13:112 937 994

217

LTR (MER101)

1

chr13:113 357 053

132

SINE (AluSc)

1

chr14:22 637 543

523

Retroposon (SVA_E)

1

chr14:24 473 723

118

LTR (LTR12D)

1

chr14:31 408 945

35

SINE (AluYb8)

1

chr14:40 110 466

324

SINE (AluYa5)

1

chr14:40 123 223

131

SINE (AluYe5)

1

chr14:45 389 772

227

Retroposon (SVA_A)

1

chr14:52 837 362

55

LTR (MER51B)

1

chr14:53 311 386

324

SINE (AluYa5)

1

chr14:59 987 435

326

SINE (AluYb8)

1

chr14:60 065 669

319

SINE (AluYj4)

1

chr14:60 108 770

313

SINE (AluYa5)

1

chr14:73 353 583

134

SINE (AluSz6)

1

chr14:89 608 202

143

SINE (AluY)

1

chr14:90 797 289

171

SINE (AluYc)

1

chr14:98 028 038

330

SINE (AluYb8)

1

chr14:98 678 770

53

SINE (Alu)

1

chr14:100 345 058

95

Retroposon (SVA_F)

1

chr14:101 358 105

70

LTR (MLT1H)

1

chr14:102 562 101

311

SINE (AluY)

1

chr14:105 111 338

223

Retroposon (SVA_F)

1

chr14:105 111 436

225

Retroposon (SVA_F)

1

chr15:23 103 992

316

SINE (AluY)

1

chr15:27 930 643

392

LINE (L1HS)

1

chr15:32 821 095

312

SINE (AluYc)

1

chr15:36 554 711

346

SINE (AluYa5)

1

chr15:44 209 805

288

SINE (AluYb8)

1

chr15:45 277 713

311

SINE (AluYa5)

1

chr15:45 290 055

31

SINE (Alu)

1

chr15:45 293 036

47

Retroposon (SVA_F)

1

chr15:47 279 101

87

LINE (L1P1)

1

chr15:56 541 721

296

SINE (AluY)

1

chr15:60 365 043

311

SINE (AluYa5)

1

chr15:60 924 332

322

SINE (AluY)

1

chr15:70 116 282

312

SINE (AluY)

1

chr15:71 757 533

132

SINE (AluJo)

1

chr15:71 769 278

124

Retroposon (SVA_F)

1

chr15:71 769 394

127

Retroposon (SVA_F)

1

chr15:72 347 195

319

SINE (AluYa5)

1

chr15:72 396 770

527

Retroposon (SVA_F)

1

chr15:75 481 597

400

Retroposon (SVA_F)

1

chr15:75 503 556

192

Retroposon (SVA_D)

1

chr15:76 230 513

82

SINE (Alu)

1

chr15:78 132 274

163

SINE (AluSx4)

1

chr15:80 355 807

93

SINE (AluSp)

1

chr15:80 370 223

315

SINE (AluY)

1

chr15:81 100 242

315

SINE (AluYa5)

1

chr15:84 854 228

317

SINE (AluYa5)

1

chr15:88 552 498

146

Retroposon (SVA_F)

1

chr15:88 941 916

118

Retroposon (SVA_A)

1

chr15:89 854 811

78

Retroposon (SVA_F)

1

chr15:94 621 784

305

SINE (AluYk2)

1

chr15:95 047 055

45

LTR (LTR12_v)

1

chr16:7 491 379

315

SINE (AluYd8)

1

chr16:8 368 176

311

SINE (AluYa5)

1

chr16:11 940 567

35

SINE (AluSg4)

1

chr16:21 227 729

317

SINE (AluY)

1

chr16:24 316 243

316

SINE (AluYa5)

1

chr16:31 105 127

143

Retroposon (SVA_F)

1

chr16:36 260 384

238

LINE (L1HS)

1

chr16:50 358 348

28

SINE (AluJb)

1

chr16:57 291 415

180

SINE (AluYa5)

1

chr16:65 448 283

314

SINE (AluY)

1

chr16:71 733 511

74

SINE (AluSp)

1

chr16:81 095 628

27

SINE (Alu)

1

chr16:82 131 072

300

SINE (AluY)

1

chr16:89 125 955

33

LINE (L1MD)

1

chr16:89 224 966

321

SINE (AluY)

1

chr17:598 874

394

Retroposon (SVA_F)

1

chr17:1 276 784

432

SINE (AluSx)

1

chr17:1 690 028

38

Retroposon (SVA_D)

1

chr17:2 448 174

125

Retroposon (SVA_D)

1

chr17:3 112 658

39

Retroposon (SVA_D)

1

chr17:3 113 047

39

Retroposon (SVA_D)

1

chr17:3 544 162

132

SINE (AluSg)

1

chr17:4 274 926

27

SINE (Alu)

1

chr17:4 411 686

257

LINE (L1HS)

1

chr17:5 069 184

326

SINE (AluSx)

1

chr17:16 095 665

104

Retroposon (SVA_D)

1

chr17:16 699 502

133

SINE (AluYk2)

1

chr17:18 888 657

351

Retroposon (SVA_F)

1

chr17:27 212 309

607

Retroposon (SVA_F)

1

chr17:28 604 067

97

Retroposon (SVA_F)

1

chr17:31 675 941

65

LTR (LTR12)

1

chr17:42 973 206

273

Retroposon (SVA_F)

1

chr17:44 181 115

253

Retroposon (SVA_A)

1

chr17:45 180 536

161

SINE (AluYc)

1

chr17:46 210 497

69

LINE (CR1_Mam)

1

chr17:47 325 026

266

SINE (AluYa5)

1

chr17:53 879 754

320

SINE (AluYa5)

1

chr17:56 870 207

295

SINE (AluYh7)

1

chr17:60 552 104

226

Retroposon (SVA_F)

1

chr17:75 194 906

334

SINE (AluYb8)

1

chr17:75 298 385

137

SINE (AluSx3)

1

chr17:76 610 520

40

LTR (HERVH-int)

1

chr18:1 235 778

322

SINE (AluY)

1

chr18:9 058 019

183

LTR (LTR45B)

1

chr18:9 401 404

322

SINE (AluYa5)

1

chr18:12 980 715

48

Retroposon (SVA_F)

1

chr18:15 779 866

217

LINE (L1P1)

1

chr18:15 780 000

123

LINE (L1P1)

1

chr18:22 626 725

44

LINE (L1M4a1)

1

chr18:28 271 206

349

SINE (AluY)

1

chr18:29 997 108

32

LTR (THE1D-int)

1

chr18:30 220 881

320

SINE (AluY)

1

chr18:38 932 567

316

SINE (AluYa5)

1

chr18:46 190 419

31

SINE (Alu)

1

chr18:48 997 461

113

SINE (AluYb8)

1

chr18:49 621 064

243

SINE (AluSx)

1

chr18:49 799 846

36

Retroposon (SVA_D)

1

chr18:53 961 960

84

LINE (L1PA2)

1

chr18:54 236 358

166

LINE (L1HS)

1

chr18:57 632 999

409

Retroposon (SVA_F)

1

chr18:64 608 891

176

Retroposon (SVA_F)

1

chr18:64 609 239

96

Retroposon (SVA_F)

1

chr18:65 820 032

317

SINE (AluY)

1

chr18:68 731 922

315

SINE (AluYk2)

1

chr18:71 476 487

53

LINE (L1P3b)

1

chr18:76 241 968

323

SINE (AluYi6_4d)

1

chr18:76 851 079

311

SINE (AluYk2)

1

chr18:78 280 919

132

LINE (L1P4)

1

chr19:1 923 899

133

SINE (AluSx)

1

chr19:2 383 641

308

SINE (AluY)

1

chr19:4 965 572

165

SINE (AluSz6)

1

chr19:7 102 802

167

SINE (AluSx)

1

chr19:9 066 899

310

SINE (AluSx)

1

chr19:10 715 006

135

SINE (AluSz)

1

chr19:14 934 350

310

SINE (AluYa5)

1

chr19:15 965 984

316

SINE (AluY)

1

chr19:20 149 557

148

Retroposon (SVA_D)

1

chr19:22 926 686

174

Retroposon (SVA_A)

1

chr19:22 927 102

46

Retroposon (SVA_F)

1

chr19:23 734 248

314

SINE (AluYb8)

1

chr19:23 768 603

320

SINE (AluYa5)

1

chr19:28 732 919

598

LINE (L1P4)

1

chr19:39 905 477

311

SINE (AluSx)

1

chr19:40 648 236

98

Retroposon (SVA_F)

1

chr19:47 926 362

315

LINE (L1P4)

1

chr19:50 585 456

100

SINE (AluJb)

1

chr19:52 720 418

73

Retroposon (SVA_A)

1

chr19:52 720 518

74

Retroposon (SVA_A)

1

chr20:4 033 152

54

Retroposon (SVA_F)

1

chr20:6 665 190

63

DNA (MER33)

1

chr20:9 641 462

118

LTR (LTR12C)

1

chr20:16 850 145

325

SINE (AluYa5)

1

chr20:16 894 383

343

SINE (AluY)

1

chr20:18 689 891

175

SINE (AluJb)

1

chr20:28 790 008

45

LINE (L1P1)

1

chr20:29 307 454

180

SINE (AluSq)

1

chr20:29 316 550

128

LTR (LTR5A)

1

chr20:29 802 581

813

LTR (PRIMA41-int)

1

chr20:35 564 371

148

SINE (AluSg)

1

chr20:38 461 434

47

Retroposon (SVA_F)

1

chr20:39 582 022

310

SINE (AluYb8)

1

chr20:44 297 116

37

SINE (AluSp)

1

chr20:45 645 652

219

Retroposon (SVA_F)

1

chr20:47 525 869

146

Retroposon (SVA_E)

1

chr20:50 366 200

35

SINE (Alu)

1

chr20:55 145 299

315

SINE (AluYa5)

1

chr20:60 439 006

74

LINE (L1MD)

1

chr21:5 216 449

221

LINE (L1M3)

1

chr21:7 101 127

298

LTR (LTR43-int)

1

chr21:10 508 068

56

LINE (L1M3)

1

chr21:19 952 209

323

SINE (AluYa5)

1

chr21:20 142 805

314

SINE (AluY)

1

chr21:24 981 910

322

SINE (AluY)

1

chr21:25 125 106

318

SINE (AluYk2)

1

chr21:27 188 703

320

SINE (AluYa5)

1

chr21:32 482 933

67

SINE (AluJo)

1

chr21:34 011 406

311

SINE (AluYa5)

1

chr21:35 865 629

332

SINE (AluYk2)

1

chr21:37 685 531

316

SINE (AluYa5)

1

chr21:42 965 782

319

SINE (AluY)

1

chr21:44 468 497

135

SINE (AluSz)

1

chr22:15 830 534

136

SINE (AluSx)

1

chr22:17 567 654

357

SINE (AluYb8)

1

chr22:21 883 573

48

Retroposon (SVA_F)

1

chr22:22 644 845

315

SINE (AluSx)

1

chr22:25 277 728

46

Retroposon (SVA_F)

1

chr22:28 380 048

320

SINE (AluYa5)

1

chr22:30 597 428

159

LTR (LTR12C)

1

chr22:32 682 040

149

LINE (L2a)

1

chr22:34 034 609

325

SINE (AluY)

1

chr22:40 501 145

128

Retroposon (SVA_F)

1

chr22:40 744 913

174

Retroposon (SVA_F)

1

chr22:40 745 453

122

Retroposon (SVA_F)

1

chr22:41 294 871

382

Retroposon (SVA_F)

1

chr22:41 552 573

39

SINE (AluJb)

1

chr22:41 631 584

39

Retroposon (SVA_C)

1

chr22:42 818 815

313

SINE (AluYa5)

1

chr22:46 509 527

44

DNA (MER20)

1

chr22:49 669 732

150

LTR (LTR12C)

1

chrX:1 057 561

80

SINE (AluSg)

1

chrX:1 304 189

333

SINE (AluSx)

1

chrX:8 978 447

88

LINE (L1P4)

1

chrX:16 964 930

124

Retroposon (SVA_F)

1

chrX:24 709 079

128

Retroposon (SVA_F)

1

chrX:27 458 491

124

Retroposon (SVA_A)

1

chrX:34 249 205

394

LINE (L1P1)

1

chrX:40 211 095

336

Retroposon (SVA_E)

1

chrX:42 285 660

395

Retroposon (SVA_E)

1

chrX:45 040 273

164

Retroposon (SVA_F)

1

chrX:52 729 421

97

LINE (L1PA4)

1

chrX:53 772 507

127

Retroposon (SVA_F)

1

chrX:65 457 302

346

Retroposon (SVA_F)

1

chrX:66 519 345

52

LINE (L1PREC2)

1

chrX:70 350 008

115

Retroposon (SVA_D)

1

chrX:71 676 857

35

Retroposon (SVA_A)

1

chrX:75 334 743

38

Retroposon (SVA_B)

1

chrX:77 354 180

321

SINE (AluYa5)

1

chrX:78 265 511

223

Retroposon (SVA_F)

1

chrX:79 301 630

66

LTR (MER50B)

1

chrX:80 215 123

116

Retroposon (SVA_A)

1

chrX:84 754 818

120

LINE (L1MC)

1

chrX:85 754 473

49

LINE (L1P1)

1

chrX:86 872 340

117

LTR (HERVL-int)

1

chrX:89 128 143

264

LINE (L1PA12)

1

chrX:89 740 949

136

SINE (AluYc)

1

chrX:92 170 920

134

SINE (AluSq)

1

chrX:104 079 600

37

LINE (L1PREC2)

1

chrX:107 501 516

133

SINE (AluYb8)

1

chrX:115 436 029

295

SINE (AluYa5)

1

chrX:120 393 985

308

SINE (AluYa5)

1

chrX:120 758 975

216

LINE (L1HS)

1

chrX:124 128 744

223

Retroposon (SVA_F)

1

chrX:137 267 661

334

SINE (AluY)

1

chrX:138 269 886

50

LTR (LTR7)

1

chrX:146 808 266

323

SINE (AluYb8)

1

chrX:146 816 231

320

SINE (AluYb8)

1

chrY:11 349 044

102

SINE (AluSq2)

1

chrY:11 384 811

209

SINE (AluYa5)

1

chrY:56 867 594

131

SINE (AluSc)

1


  • 2 231 TE insertions were found with an AF ≥ 0.5.
A Manhattan plot of AFs is shown below.
Allele frequency is shown for insertions for each chromosome. Each dot marks a different insertion.

Allele frequency is shown for insertions for each chromosome. Each dot marks a different insertion.

1.2.3 Genome distribution

A) Unique TE insertions occurences on the genome. B) Gene annotations of TE insertions on the genome. A single TE may be annotated more than once.

  1. Unique TE insertions occurences on the genome. B) Gene annotations of TE insertions on the genome. A single TE may be annotated more than once.

2 Analysis by TE class

This is the classification of TEs by class (I or II), family (e.g., SINE), subfamily (e.g., Alu) and name (e.g., AluY). SVA, Alu and L1 elements have their own table on the Class I section.

Repeat
family

Repeat
subfamily

Unique

Total
(lax)

Total
(strict)

DNA

hAT

2

4

4

TcMar

6

12

12

LINE

CR1

3

6

6

L1

268

527

519

L2

9

18

18

LTR

ERV1

97

184

170

ERVK

15

30

28

ERVL

35

69

65

Retroposon

SVA

394

757

665

SINE

Alu

1 523

3 028

3 006

MIR

3

6

6

Total

-

2 355

4 641

4 499

2.1 Class I Elements

2.1.1 Distribution

A) Unique class I TE insertions occurrences on the genome. B) Gene annotations of class I TE insertions on the genome. A single TE may be annotated more than once.

  1. Unique class I TE insertions occurrences on the genome. B) Gene annotations of class I TE insertions on the genome. A single TE may be annotated more than once.

Detailed classification

Count of SVA elements by name

Name

Unique

Total
(lax)

Total
(strict)

SVA A

48

95

85

SVA B

15

30

27

SVA C

16

32

25

SVA D

19

38

37

SVA E

61

116

101

SVA F

232

440

384

SVA F1

3

6

6

Total

394

757

665

Click to show table with Alu counts by name.
Count of _Alu_ elements by name

Name

Unique

Total
(lax)

Total
(strict)

Alu

10

20

18

AluJb

33

64

61

AluJo

2

4

4

AluJr4

1

2

2

AluSc

7

13

12

AluSc8

5

10

10

AluSg

9

18

17

AluSg4

4

8

8

AluSg7

1

2

2

AluSp

10

20

20

AluSq

10

20

19

AluSq2

6

12

12

AluSx

60

117

112

AluSx1

1

2

2

AluSx3

7

14

14

AluSx4

5

10

9

AluSz

7

14

14

AluSz6

4

8

7

AluY

372

741

736

AluYa5

440

879

879

AluYa8

3

6

6

AluYb8

275

545

545

AluYb9

37

74

74

AluYc

24

48

48

AluYc3

1

2

1

AluYd8

11

22

22

AluYe5

47

94

94

AluYe6

1

2

2

AluYf1

4

8

8

AluYg6

34

68

68

AluYh7

5

10

10

AluYi6

5

10

10

AluYi6 4d

3

6

6

AluYj4

4

8

8

AluYk11

1

2

2

AluYk12

4

8

8

AluYk2

53

105

105

AluYk3

2

4

4

AluYk4

5

10

10

AluYm1

2

4

4

FLAM C

3

6

6

FRAM

5

8

7

Total

1 523

3 028

3 006

Click to show table with L1 counts by name.
Count of L1 elements by name

Name

Unique

Total
(lax)

Total
(strict)

L1HS

108

214

213

L1M1

7

14

14

L1M2

4

8

8

L1M2a1

1

2

2

L1M3

6

12

12

L1M3de

1

2

2

L1M4

4

7

6

L1M4b

1

2

2

L1M4c

1

2

2

L1M5

5

10

10

L1MA4

1

2

2

L1MB3

2

4

3

L1MB5

2

4

4

L1MB8

1

2

2

L1MC

2

4

4

L1MC1

1

2

2

L1MC3

1

2

2

L1MC4

2

4

4

L1MC4a

1

2

2

L1MC5

2

4

4

L1MCa

2

4

4

L1MD

2

4

4

L1MD3

1

2

2

L1ME1

1

2

2

L1ME2z

1

2

2

L1MEc

1

2

2

L1MEd

1

2

2

L1MEg

2

4

4

L1P1

22

43

42

L1P2

9

17

17

L1P3

12

23

21

L1P3b

1

2

2

L1P4

9

17

16

L1P4e

1

2

2

L1P5

5

9

9

L1PA10

2

4

4

L1PA11

1

2

2

L1PA12

2

4

4

L1PA15-16

1

2

2

L1PA16

2

4

4

L1PA2

7

14

14

L1PA3

2

4

4

L1PA4

5

10

10

L1PA6

2

4

4

L1PA7

3

6

6

L1PA8

1

1

1

L1PA8A

1

2

2

L1PB

3

6

6

L1PB1

3

6

6

L1PBa

2

4

4

L1PBb

1

2

2

L1PREC2

7

14

13

Total

268

527

519

2.1.2 Class II TEs on gene sequences

Click to show table with 1232 rows.

Position

Length

Type

Gene

Annotation

Occurrences

chr1:1 477 853

133

SINE (Alu)

ATAD3B

Promoter

2

chr1:1 477 853

133

SINE (Alu)

ATAD3B

Intron

2

chr1:1 993 703

145

SINE (Alu)

CFAP74

Intron

2

chr1:5 874 227

283

SINE (Alu)

NPHP4

Promoter

2

chr1:5 874 227

283

SINE (Alu)

NPHP4

Intron

2

chr1:7 018 123

182

SINE (Alu)

CAMTA1

Intron

2

chr1:7 114 731

48

LTR (ERVL)

CAMTA1

Intron

1

chr1:8 502 132

594

Retroposon (SVA)

RERE

Intron

1

chr1:9 170 366

317

SINE (Alu)

MIR34AHG

Intron

2

chr1:9 968 550

139

SINE (Alu)

NMNAT1

Intron

2

chr1:16 311 086

147

SINE (Alu)

FBXO42

Intron

2

chr1:16 424 204

134

SINE (Alu)

SPATA21

Intron

2

chr1:16 868 226

318

SINE (Alu)

CROCC

Intron

2

chr1:21 166 095

315

SINE (Alu)

EIF4G3

Intron

2

chr1:24 634 836

312

SINE (Alu)

SRRM1

Intron

2

chr1:28 994 949

313

SINE (Alu)

EPB41

Intron

2

chr1:29 100 312

322

SINE (Alu)

EPB41

Intron

2

chr1:33 052 502

101

Retroposon (SVA)

AK2

Intron

1

chr1:37 967 098

314

SINE (Alu)

SF3A3

Intron

2

chr1:38 485 066

75

SINE (Alu)

LINC01685

Intron

2

chr1:39 211 989

316

SINE (Alu)

MACF1

Intron

2

chr1:39 234 551

520

Retroposon (SVA)

MACF1

Intron

1

chr1:39 234 641

488

Retroposon (SVA)

MACF1

Intron

1

chr1:41 924 632

326

SINE (Alu)

HIVEP3

Intron

2

chr1:42 018 288

1 497

LINE (L1)

HIVEP3

Intron

2

chr1:44 876 572

397

Retroposon (SVA)

EIF2B3

Promoter

2

chr1:44 876 572

397

Retroposon (SVA)

EIF2B3

Intron

2

chr1:45 223 068

215

Retroposon (SVA)

ZSWIM5

Intron

2

chr1:50 446 975

337

SINE (Alu)

FAF1

Intron

2

chr1:51 711 474

317

Retroposon (SVA)

OSBPL9

Intron

1

chr1:52 869 959

98

Retroposon (SVA)

ZYG11A

Intron

2

chr1:54 561 764

176

Retroposon (SVA)

ACOT11

Intron

2

chr1:57 606 184

211

SINE (Alu)

DAB1

Intron

2

chr1:58 272 333

270

SINE (Alu)

DAB1

Intron

2

chr1:58 739 631

307

SINE (Alu)

LOC112268263

Intron

2

chr1:62 996 278

318

SINE (Alu)

LINC01739

Intron

2

chr1:63 473 989

115

Retroposon (SVA)

ITGB3BP

Intron

2

chr1:64 492 377

342

SINE (Alu)

CACHD1

Intron

2

chr1:65 590 242

316

SINE (Alu)

LEPR

Intron

2

chr1:69 625 372

326

SINE (Alu)

LRRC7

Intron

2

chr1:70 062 872

331

SINE (Alu)

LRRC7

Intron

2

chr1:72 173 321

316

SINE (Alu)

NEGR1

Intron

2

chr1:74 727 204

3 702

LINE (L1)

CRYZ

Intron

2

chr1:77 168 628

307

SINE (Alu)

PIGK

Intron

2

chr1:79 116 389

307

SINE (Alu)

ADGRL4

Intron

2

chr1:81 846 355

322

SINE (Alu)

ADGRL2

Intron

2

chr1:83 144 049

1 737

LINE (L1)

LINC01362

Intron

2

chr1:87 825 866

120

SINE (Alu)

LOC107985518

Intron

2

chr1:89 797 987

79

Retroposon (SVA)

LRRC8D

Intron

1

chr1:89 905 000

269

SINE (Alu)

LRRC8D

Intron

2

chr1:90 534 118

318

SINE (Alu)

LINC02787

Promoter

2

chr1:91 768 794

332

SINE (Alu)

TGFBR3

Intron

2

chr1:92 701 961

323

SINE (Alu)

EVI5

Intron

2

chr1:97 252 071

324

SINE (Alu)

DPYD-AS1

Intron

2

chr1:99 144 969

299

SINE (Alu)

PLPPR5-AS1

Intron

2

chr1:107 599 843

308

SINE (Alu)

VAV3

Intron

2

chr1:109 177 355

76

Retroposon (SVA)

ELAPOR1

Intron

2

chr1:111 560 471

295

SINE (Alu)

RAP1A

Intron

2

chr1:112 193 371

328

SINE (Alu)

LINC02884

Intron

2

chr1:112 449 371

315

SINE (Alu)

CTTNBP2NL

Intron

2

chr1:112 847 902

314

SINE (Alu)

LINC01356

Intron

2

chr1:147 467 282

73

LINE (L1)

LINC00624

Intron

1

chr1:147 488 599

103

SINE (MIR)

LINC00624

Intron

2

chr1:147 653 127

306

SINE (Alu)

ACP6

Intron

2

chr1:147 949 446

117

Retroposon (SVA)

GPR89B

Intron

2

chr1:150 227 792

277

SINE (Alu)

ANP32E

Intron

2

chr1:150 990 241

336

SINE (Alu)

ANXA9

Intron

2

chr1:151 769 291

90

Retroposon (SVA)

OAZ3

Intron

2

chr1:155 700 905

347

Retroposon (SVA)

DAP3

Intron

2

chr1:155 954 588

320

SINE (Alu)

ARHGEF2

Intron

2

chr1:156 328 044

140

Retroposon (SVA)

CCT3

Intron

2

chr1:162 267 455

312

SINE (Alu)

NOS1AP

Intron

2

chr1:162 293 222

319

SINE (Alu)

NOS1AP

Intron

2

chr1:162 791 517

316

SINE (Alu)

HSD17B7

Intron

2

chr1:163 247 451

333

SINE (Alu)

RGS5

Intron

2

chr1:163 344 640

328

SINE (Alu)

NUF2

Intron

2

chr1:165 892 145

2 352

Retroposon (SVA)

UCK2

Promoter

2

chr1:165 892 145

2 352

Retroposon (SVA)

UCK2

Intron

2

chr1:167 743 624

317

SINE (Alu)

MPZL1

Intron

2

chr1:169 256 810

126

LINE (L1)

ATP1B1

Intron

2

chr1:169 555 627

619

LINE (L1)

F5

Intron

2

chr1:169 993 600

163

SINE (Alu)

KIFAP3

Intron

2

chr1:172 571 914

354

Retroposon (SVA)

SUCO

Intron

1

chr1:179 522 822

352

SINE (Alu)

AXDND1

Intron

2

chr1:181 619 208

322

SINE (Alu)

CACNA1E

Intron

2

chr1:181 632 139

282

SINE (Alu)

CACNA1E

Intron

2

chr1:182 451 704

323

SINE (Alu)

RGSL1

Intron

2

chr1:184 000 538

3 795

LINE (L1)

COLGALT2

Intron

2

chr1:192 857 342

76

Retroposon (SVA)

LOC105371665

Intron

2

chr1:192 857 702

175

Retroposon (SVA)

LOC105371665

Intron

2

chr1:196 792 226

323

SINE (Alu)

CFH

Intron

2

chr1:197 042 727

286

SINE (Alu)

F13B

Intron

2

chr1:198 500 207

319

SINE (Alu)

LOC105371677

Intron

2

chr1:198 846 183

283

SINE (Alu)

MIR181A1HG

Intron

2

chr1:199 360 533

320

SINE (Alu)

LINC02789

Intron

2

chr1:204 269 326

329

SINE (Alu)

PLEKHA6

Intron

2

chr1:204 375 912

329

SINE (Alu)

PLEKHA6

Intron

2

chr1:212 592 491

317

SINE (Alu)

ATF3

Intron

2

chr1:212 801 295

2 410

Retroposon (SVA)

TATDN3

Intron

2

chr1:219 010 830

100

LINE (L1)

LYPLAL1-DT

Intron

2

chr1:222 697 340

328

SINE (Alu)

AIDA

Intron

2

chr1:227 275 238

324

SINE (Alu)

CDC42BPA

Intron

2

chr1:227 314 750

135

SINE (Alu)

CDC42BPA

Intron

2

chr1:227 414 560

315

SINE (Alu)

LINC01641

Intron

2

chr1:230 949 403

302

SINE (Alu)

TTC13

Intron

2

chr1:233 206 358

314

SINE (Alu)

PCNX2

Intron

2

chr1:234 669 965

326

SINE (Alu)

LOC105373209

Intron

2

chr1:235 309 350

85

Retroposon (SVA)

ARID4B

Intron

2

chr1:235 635 569

167

LTR (ERVL)

GNG4

Intron

2

chr1:237 286 555

203

LINE (L1)

RYR2

Intron

2

chr1:237 405 893

319

SINE (Alu)

RYR2

Intron

2

chr1:239 616 844

312

SINE (Alu)

CHRM3

Intron

2

chr1:240 060 352

54

SINE (Alu)

FMN2

Intron

2

chr1:241 326 641

326

SINE (Alu)

RGS7

Intron

2

chr1:242 148 258

6 041

LINE (L1)

PLD5

Intron

2

chr1:245 826 009

324

SINE (Alu)

SMYD3

Intron

2

chr1:246 056 659

318

SINE (Alu)

SMYD3

Intron

2

chr1:246 243 399

331

SINE (Alu)

SMYD3

Intron

2

chr1:246 402 366

165

SINE (Alu)

SMYD3

Intron

2

chr1:246 429 027

317

SINE (Alu)

SMYD3

Intron

2

chr1:248 911 737

126

Retroposon (SVA)

PGBD2

Intron

2

chr1:433 445

76

LINE (L1)

LOC112268260

Intron

1

chr1:710 578

318

SINE (Alu)

OR4F16

Intron

2

chr2:1 199 165

306

SINE (Alu)

SNTG2

Intron

2

chr2:1 467 941

329

SINE (Alu)

TPO

Intron

2

chr2:2 295 538

173

LTR (ERV1)

MYT1L

Intron

1

chr2:11 213 564

311

SINE (Alu)

ROCK2

Intron

2

chr2:11 286 233

324

SINE (Alu)

ROCK2

Intron

2

chr2:15 379 414

312

SINE (Alu)

NBAS

Intron

2

chr2:15 541 819

152

Retroposon (SVA)

NBAS

Intron

2

chr2:21 573 937

297

SINE (Alu)

LOC105374320

Intron

2

chr2:24 255 675

122

SINE (Alu)

ITSN2

Intron

2

chr2:26 251 065

328

SINE (Alu)

HADHB

Intron

2

chr2:27 539 883

126

Retroposon (SVA)

C2orf16

Intron

2

chr2:31 336 815

310

SINE (Alu)

XDH

Intron

2

chr2:36 777 087

308

SINE (Alu)

VIT

Intron

2

chr2:39 079 154

61

LINE (L1)

SOS1

Intron

2

chr2:39 088 182

316

SINE (Alu)

SOS1

Intron

2

chr2:43 298 031

356

Retroposon (SVA)

THADA

Intron

2

chr2:44 588 991

259

Retroposon (SVA)

CAMKMT

Intron

1

chr2:44 588 991

536

Retroposon (SVA)

CAMKMT

Intron

2

chr2:44 598 695

316

SINE (Alu)

CAMKMT

Intron

2

chr2:45 969 044

332

SINE (Alu)

PRKCE

Intron

2

chr2:46 701 810

298

SINE (Alu)

LINC01118

Intron

2

chr2:47 092 140

323

SINE (Alu)

STPG4

Intron

2

chr2:50 375 490

328

SINE (Alu)

NRXN1

Intron

2

chr2:59 399 864

330

SINE (Alu)

LOC105374754

Intron

2

chr2:62 139 878

168

SINE (Alu)

COMMD1

Intron

1

chr2:63 552 086

325

SINE (Alu)

WDPCP

Intron

2

chr2:65 106 650

304

SINE (Alu)

RAB1A

Intron

2

chr2:65 600 689

1 341

Retroposon (SVA)

LINC02934

Intron

1

chr2:66 431 844

325

SINE (Alu)

MEIS1-AS3

Intron

2

chr2:69 517 524

317

SINE (Alu)

AAK1

Intron

2

chr2:71 479 155

181

SINE (Alu)

DYSF

Intron

2

chr2:73 898 351

317

SINE (Alu)

ACTG2

Intron

2

chr2:75 160 770

314

SINE (Alu)

LOC105374811

Intron

2

chr2:80 541 884

269

SINE (Alu)

CTNNA2

Intron

2

chr2:87 180 576

493

LINE (L1)

LOC102724642

Intron

2

chr2:104 078 052

73

LTR (ERV1)

LINC01965

Intron

2

chr2:105 836 109

316

SINE (Alu)

NCK2

Intron

2

chr2:111 283 808

329

SINE (Alu)

MIR4435-2HG

Intron

2

chr2:111 689 844

327

SINE (Alu)

MIR4435-2HG

Intron

2

chr2:111 780 870

73

LINE (L1)

ANAPC1

Promoter

1

chr2:111 780 870

73

LINE (L1)

ANAPC1

Intron

1

chr2:111 958 964

325

SINE (Alu)

MERTK

Intron

2

chr2:113 395 042

127

Retroposon (SVA)

LINC02966

Intron

2

chr2:113 464 500

316

SINE (Alu)

ZNG1B

Intron

2

chr2:117 871 796

101

LINE (L1)

LOC101929908

Intron

2

chr2:118 042 430

74

LINE (L1)

LOC102723413

Intron

2

chr2:119 843 893

642

Retroposon (SVA)

PTPN4

Intron

1

chr2:119 844 107

218

Retroposon (SVA)

PTPN4

Intron

1

chr2:122 573 068

317

SINE (Alu)

LOC105373595

Intron

2

chr2:122 762 574

312

SINE (Alu)

LOC105373595

Intron

2

chr2:127 881 317

326

SINE (Alu)

AMMECR1L

Intron

2

chr2:127 981 347

120

LTR (ERV1)

SAP130

Intron

2

chr2:131 765 910

259

SINE (Alu)

C2orf27A

Intron

2

chr2:133 158 922

325

SINE (Alu)

NCKAP5

Intron

2

chr2:140 776 485

328

SINE (Alu)

LRP1B

Intron

2

chr2:147 892 493

299

SINE (Alu)

ACVR2A

Intron

2

chr2:152 160 907

174

Retroposon (SVA)

STAM2

Intron

2

chr2:152 391 750

328

SINE (Alu)

FMNL2

Intron

2

chr2:153 896 067

331

SINE (Alu)

GALNT13

Intron

2

chr2:158 426 108

329

SINE (Alu)

CCDC148

Intron

2

chr2:159 251 110

156

SINE (Alu)

WDSUB1

Intron

2

chr2:159 519 808

158

SINE (Alu)

BAZ2B

Intron

2

chr2:165 037 524

82

LINE (L1)

LOC101929633

Intron

2

chr2:169 179 811

312

SINE (Alu)

LRP2

Intron

2

chr2:171 866 581

402

Retroposon (SVA)

SLC25A12

Intron

1

chr2:172 700 342

116

Retroposon (SVA)

RAPGEF4-AS1

Intron

2

chr2:174 087 490

2 687

Retroposon (SVA)

OLA1

Intron

2

chr2:174 871 203

318

SINE (Alu)

CHN1

Intron

2

chr2:177 453 984

333

SINE (Alu)

AGPS

Intron

2

chr2:177 486 724

340

SINE (Alu)

AGPS

Intron

2

chr2:188 298 290

302

SINE (Alu)

GULP1

Intron

2

chr2:190 430 797

94

Retroposon (SVA)

MFSD6

Intron

1

chr2:191 398 198

298

Retroposon (SVA)

MYO1B

Intron

2

chr2:191 975 312

330

SINE (Alu)

CAVIN2-AS1

Intron

2

chr2:197 898 723

311

SINE (Alu)

PLCL1

Intron

2

chr2:201 766 721

319

SINE (Alu)

ALS2

Intron

2

chr2:202 534 992

49

Retroposon (SVA)

BMPR2

Intron

1

chr2:207 607 676

320

SINE (Alu)

METTL21A

Intron

2

chr2:211 843 606

314

SINE (Alu)

ERBB4

Intron

2

chr2:212 060 586

330

SINE (Alu)

ERBB4

Intron

2

chr2:214 336 906

323

SINE (Alu)

SPAG16

Intron

2

chr2:214 835 361

413

Retroposon (SVA)

SNHG31

Intron

1

chr2:214 835 480

425

Retroposon (SVA)

SNHG31

Intron

1

chr2:215 683 694

326

SINE (Alu)

LOC102724861

Intron

2

chr2:217 316 033

304

SINE (Alu)

DIRC3-AS1

Intron

2

chr2:218 333 969

321

SINE (Alu)

PNKD

Intron

2

chr2:218 711 869

327

SINE (Alu)

TTLL4

Intron

2

chr2:222 896 866

77

Retroposon (SVA)

ACSL3

Intron

2

chr2:230 937 442

216

LTR (ERV1)

GPR55

Intron

2

chr2:232 246 907

127

LINE (L1)

DIS3L2

Intron

2

chr2:232 981 165

311

SINE (Alu)

NGEF

Intron

2

chr3:2 920 307

318

SINE (Alu)

CNTN4

Intron

2

chr3:4 163 465

314

SINE (Alu)

SUMF1

Intron

2

chr3:7 088 682

316

SINE (Alu)

GRM7

Intron

2

chr3:7 572 894

311

SINE (Alu)

GRM7

Intron

2

chr3:8 440 375

505

Retroposon (SVA)

LOC101927394

Intron

2

chr3:10 070 465

208

Retroposon (SVA)

FANCD2

Intron

2

chr3:11 487 519

522

Retroposon (SVA)

ATG7

Intron

2

chr3:12 095 537

325

SINE (Alu)

SYN2

Intron

2

chr3:14 041 654

332

SINE (Alu)

TPRXL

Intron

2

chr3:15 742 680

748

Retroposon (SVA)

ANKRD28

Intron

2

chr3:16 980 126

779

Retroposon (SVA)

PLCL2

Intron

2

chr3:24 946 366

2 952

LINE (L1)

RARB

Intron

2

chr3:25 249 858

71

LINE (L1)

RARB

Intron

2

chr3:25 348 403

318

SINE (Alu)

RARB

Intron

2

chr3:28 665 552

268

SINE (Alu)

ZCWPW2

Intron

2

chr3:29 473 341

159

LTR (ERV1)

ZCWPW2

Intron

1

chr3:31 839 889

327

SINE (Alu)

OSBPL10

Intron

2

chr3:34 317 734

6 091

LINE (L1)

LINC01811

Intron

2

chr3:42 856 917

326

SINE (Alu)

ACKR2

Intron

2

chr3:45 501 159

315

SINE (Alu)

LARS2

Intron

2

chr3:47 741 368

317

SINE (Alu)

SMARCC1

Intron

2

chr3:48 330 822

325

SINE (Alu)

SPINK8

Intron

2

chr3:49 913 639

325

SINE (Alu)

MON1A

Intron

2

chr3:50 025 591

268

SINE (Alu)

RBM6

Intron

2

chr3:50 084 927

174

Retroposon (SVA)

RBM6

Intron

1

chr3:50 311 874

492

Retroposon (SVA)

HYAL1

Intron

1

chr3:50 841 730

331

SINE (Alu)

DOCK3

Intron

2

chr3:51 249 632

77

Retroposon (SVA)

DOCK3

Intron

2

chr3:55 754 538

6 054

LINE (L1)

ERC2

Intron

2

chr3:56 584 248

79

Retroposon (SVA)

CCDC66

Intron

2

chr3:59 908 834

108

SINE (Alu)

FHIT

Intron

2

chr3:61 671 727

177

Retroposon (SVA)

PTPRG

Intron

2

chr3:61 671 741

279

Retroposon (SVA)

PTPRG

Intron

1

chr3:67 444 511

403

Retroposon (SVA)

SUCLG2

Intron

2

chr3:76 936 718

319

SINE (Alu)

ROBO2

Intron

2

chr3:78 809 652

88

LINE (L1)

ROBO1

Intron

2

chr3:86 058 273

331

SINE (Alu)

CADM2

Intron

2

chr3:89 257 671

322

SINE (Alu)

EPHA3

Intron

2

chr3:98 836 816

78

Retroposon (SVA)

DCBLD2

Intron

2

chr3:99 007 919

312

SINE (Alu)

LOC105374002

Intron

2

chr3:99 936 539

324

SINE (Alu)

CMSS1

Intron

2

chr3:111 268 619

321

SINE (Alu)

LOC105374038

Intron

2

chr3:111 507 514

339

SINE (Alu)

LOC105374039

Intron

2

chr3:112 205 623

49

LINE (L1)

SLC9C1

Intron

2

chr3:112 747 856

3 451

Retroposon (SVA)

LINC02042

Intron

2

chr3:123 407 764

310

SINE (Alu)

ADCY5

Intron

2

chr3:123 871 864

6 046

LINE (L1)

MYLK

Intron

2

chr3:124 849 824

322

SINE (Alu)

ITGB5

Intron

2

chr3:124 922 697

135

SINE (Alu)

MUC13

Intron

2

chr3:125 910 277

53

LTR (ERVL)

LOC102723696

Promoter

2

chr3:125 910 277

53

LTR (ERVL)

LINC02614

Intron

2

chr3:128 676 364

312

SINE (Alu)

RPN1

Intron

2

chr3:128 955 324

176

Retroposon (SVA)

CFAP92

Intron

2

chr3:130 219 573

318

SINE (Alu)

COL6A4P2

Intron

2

chr3:132 470 620

403

Retroposon (SVA)

DNAJC13

Intron

2

chr3:132 471 009

49

Retroposon (SVA)

DNAJC13

Intron

2

chr3:136 893 195

105

LINE (L1)

NCK1

Intron

2

chr3:142 741 180

314

SINE (Alu)

TRPC1

Intron

2

chr3:143 475 998

314

SINE (Alu)

SLC9A9

Intron

2

chr3:149 380 192

680

Retroposon (SVA)

TM4SF1-AS1

Intron

2

chr3:151 820 689

171

SINE (Alu)

AADAC

Intron

2

chr3:153 444 920

150

SINE (Alu)

LINC02877

Intron

2

chr3:158 245 130

337

SINE (Alu)

RSRC1

Intron

2

chr3:160 409 110

176

SINE (Alu)

SMC4

Intron

2

chr3:169 167 960

309

SINE (Alu)

MECOM

Intron

2

chr3:174 211 574

119

LTR (ERV1)

NLGN1

Intron

1

chr3:174 507 650

338

SINE (Alu)

NAALADL2

Intron

2

chr3:174 692 945

321

SINE (Alu)

NAALADL2

Intron

2

chr3:174 796 725

242

LINE (L1)

NAALADL2

Intron

2

chr3:178 393 249

329

SINE (Alu)

KCNMB2

Intron

2

chr3:179 121 484

67

Retroposon (SVA)

PIK3CA-DT

Intron

2

chr3:181 475 048

3 196

LINE (L1)

SOX2-OT

Intron

1

chr3:182 153 141

129

LINE (L1)

LOC105374243

Intron

1

chr3:183 870 209

302

SINE (Alu)

MAP6D1

Intron

2

chr3:187 240 159

328

SINE (Alu)

MASP1

Intron

2

chr3:189 165 421

321

SINE (Alu)

TPRG1

Intron

2

chr3:191 390 410

77

LTR (ERV1)

CCDC50

Intron

2

chr3:196 874 212

322

SINE (Alu)

SENP5

Intron

2

chr4:1 308 027

317

SINE (Alu)

MAEA

Intron

2

chr4:1 319 643

132

SINE (Alu)

MAEA

Intron

2

chr4:4 349 002

64

LTR (ERV1)

NSG1

Intron

1

chr4:4 357 815

132

LINE (L1)

NSG1

Intron

2

chr4:9 449 339

137

LINE (L1)

DEFB131A

Intron

2

chr4:13 761 218

145

Retroposon (SVA)

LOC107986182

Intron

2

chr4:14 847 401

5 443

LINE (L1)

LINC00504

Intron

2

chr4:14 955 276

114

LTR (ERVL)

CPEB2-DT

Intron

2

chr4:15 615 466

237

LTR (ERV1)

FBXL5

Intron

2

chr4:19 364 519

325

SINE (Alu)

LINC02438

Intron

2

chr4:25 808 835

135

SINE (Alu)

SEL1L3

Intron

1

chr4:25 808 835

135

SINE (Alu)

SEL1L3

Intron

1

chr4:37 509 272

84

Retroposon (SVA)

C4orf19

Intron

2

chr4:37 532 947

111

LINE (L1)

C4orf19

Intron

2

chr4:39 408 924

320

SINE (Alu)

KLB

Intron

2

chr4:42 086 022

315

SINE (Alu)

SLC30A9

Intron

2

chr4:46 378 053

292

Retroposon (SVA)

GABRA2

Intron

1

chr4:47 005 771

421

LINE (L1)

GABRB1

Intron

2

chr4:47 494 499

314

SINE (Alu)

ATP10D

Intron

2

chr4:47 542 099

333

SINE (Alu)

ATP10D

Intron

2

chr4:52 081 944

147

LINE (CR1)

SPATA18

Intron

2

chr4:52 737 160

170

SINE (Alu)

RASL11B

Intron

2

chr4:52 985 667

311

SINE (Alu)

SCFD2

Intron

2

chr4:53 549 475

318

SINE (Alu)

PDGFRA

Intron

2

chr4:54 154 800

160

LTR (ERV1)

PDGFRA

Intron

1

chr4:64 351 027

291

SINE (Alu)

TECRL

Intron

2

chr4:72 104 993

318

SINE (Alu)

NPFFR2

Intron

2

chr4:76 102 654

315

SINE (Alu)

ART3

Intron

2

chr4:81 708 982

317

SINE (Alu)

RASGEF1B

Intron

2

chr4:85 549 216

314

SINE (Alu)

ARHGAP24

Intron

2

chr4:85 583 924

72

LINE (L1)

ARHGAP24

Intron

2

chr4:87 308 500

143

SINE (Alu)

HSD17B13

Intron

2

chr4:87 713 074

320

SINE (Alu)

LOC105377324

Intron

2

chr4:98 046 002

54

LINE (L1)

STPG2

Intron

2

chr4:101 120 577

318

SINE (Alu)

PPP3CA

Intron

2

chr4:102 422 590

1 885

LINE (L1)

SLC39A8

Intron

2

chr4:104 545 400

318

SINE (Alu)

CXXC4-AS1

Intron

2

chr4:105 586 230

325

SINE (Alu)

ARHGEF38

Intron

2

chr4:114 628 762

317

SINE (Alu)

UGT8

Intron

2

chr4:117 844 098

1 731

LINE (L1)

LINC02264

Intron

2

chr4:118 853 560

317

SINE (Alu)

SYNPO2

Intron

2

chr4:132 196 673

315

SINE (Alu)

LOC105377428

Intron

2

chr4:134 001 190

306

SINE (Alu)

PABPC4L

Intron

2

chr4:134 209 110

327

SINE (Alu)

PABPC4L

Intron

2

chr4:136 885 359

139

SINE (Alu)

LINC02511

Intron

2

chr4:138 304 044

323

SINE (Alu)

LINC00498

Intron

2

chr4:140 017 765

150

SINE (Alu)

MAML3

Intron

2

chr4:144 784 654

134

LINE (L1)

GYPA

Intron

2

chr4:147 132 785

324

SINE (Alu)

LOC105377476

Intron

2

chr4:150 660 237

97

Retroposon (SVA)

LRBA

Intron

1

chr4:150 953 967

79

Retroposon (SVA)

LRBA

Intron

2

chr4:151 214 784

126

Retroposon (SVA)

SH3D19

Intron

2

chr4:153 979 895

318

SINE (Alu)

LOC101927947

Intron

2

chr4:154 213 487

74

LTR (ERVL)

LOC101927947

Intron

1

chr4:159 704 885

335

SINE (Alu)

LINC02233

Intron

2

chr4:161 435 495

310

SINE (Alu)

FSTL5

Intron

2

chr4:163 836 593

223

SINE (Alu)

MARCHF1

Intron

2

chr4:164 112 984

277

SINE (Alu)

MARCHF1

Intron

2

chr4:165 269 623

322

SINE (Alu)

KLHL2

Intron

2

chr4:169 667 679

314

SINE (Alu)

CLCN3

Intron

2

chr4:169 913 439

299

SINE (Alu)

LOC105377530

Intron

2

chr4:173 123 062

318

SINE (Alu)

GALNT7-DT

Intron

2

chr4:173 228 288

315

SINE (Alu)

GALNT7

Intron

2

chr4:174 290 427

311

SINE (Alu)

CEP44

Intron

2

chr4:181 070 771

337

SINE (Alu)

LINC00290

Intron

2

chr4:185 440 757

303

SINE (Alu)

C4orf47

Intron

2

chr4:185 460 991

289

SINE (Alu)

CCDC110

Intron

2

chr5:1 585 386

314

SINE (Alu)

SDHAP3

Intron

2

chr5:1 812 525

311

SINE (Alu)

NDUFS6

Intron

2

chr5:3 383 808

144

SINE (Alu)

LINC01019

Intron

2

chr5:5 279 667

313

SINE (Alu)

ADAMTS16

Intron

2

chr5:7 151 510

328

SINE (Alu)

LINC02196

Intron

2

chr5:10 634 867

317

SINE (Alu)

ANKRD33B

Intron

2

chr5:16 716 503

310

SINE (Alu)

MYO10

Intron

2

chr5:17 712 495

332

SINE (Alu)

LINC02223

Intron

2

chr5:20 471 978

279

LINE (L2)

CDH18

Intron

2

chr5:20 928 745

316

SINE (Alu)

LINC02241

Intron

2

chr5:32 762 455

328

SINE (Alu)

NPR3

Intron

2

chr5:32 974 396

1 064

LINE (L1)

LOC105374715

Intron

2

chr5:33 633 231

5 217

LINE (L1)

ADAMTS12

Intron

2

chr5:34 113 145

321

SINE (Alu)

C1QTNF3-AMACR

Intron

2

chr5:34 717 924

336

SINE (Alu)

RAI14

Intron

2

chr5:37 563 675

95

Retroposon (SVA)

WDR70

Intron

2

chr5:37 688 692

281

SINE (Alu)

WDR70

Intron

2

chr5:39 292 866

330

SINE (Alu)

C9

Intron

2

chr5:39 938 350

329

SINE (Alu)

LINC00603

Intron

2

chr5:42 625 750

334

SINE (Alu)

GHR

Intron

2

chr5:43 393 687

328

SINE (Alu)

CCL28

Intron

2

chr5:43 517 805

328

SINE (Alu)

C5orf34-AS1

Intron

2

chr5:54 087 760

65

SINE (Alu)

ARL15

Intron

2

chr5:55 433 459

334

SINE (Alu)

PLPP1

Intron

2

chr5:55 695 929

97

Retroposon (SVA)

SLC38A9

Intron

1

chr5:55 696 695

293

Retroposon (SVA)

SLC38A9

Intron

2

chr5:59 220 802

314

SINE (Alu)

PDE4D

Intron

2

chr5:62 339 522

310

SINE (Alu)

KIF2A

Intron

2

chr5:65 940 635

48

Retroposon (SVA)

ERBIN

Intron

1

chr5:68 967 632

651

LINE (L1)

LOC107984116

Intron

2

chr5:69 515 538

96

Retroposon (SVA)

OCLN

Intron

2

chr5:76 172 403

50

Retroposon (SVA)

SV2C

Intron

1

chr5:76 172 419

98

Retroposon (SVA)

SV2C

Intron

1

chr5:77 042 983

300

Retroposon (SVA)

AGGF1

Intron

1

chr5:77 395 389

313

SINE (Alu)

PDE8B

Intron

2

chr5:77 420 368

333

SINE (Alu)

PDE8B

Intron

2

chr5:82 140 183

973

Retroposon (SVA)

ATG10

Intron

2

chr5:82 140 204

211

Retroposon (SVA)

ATG10

Intron

2

chr5:87 076 864

295

SINE (Alu)

LOC101929380

Intron

2

chr5:87 301 462

245

SINE (Alu)

RASA1

Intron

2

chr5:90 154 950

6 074

LINE (L1)

LINC01339

Intron

2

chr5:90 702 006

152

SINE (Alu)

ADGRV1

Intron

2

chr5:104 128 705

324

SINE (Alu)

NIHCOLE

Intron

2

chr5:106 845 191

325

SINE (Alu)

LINC01950

Intron

2

chr5:111 450 624

189

SINE (Alu)

CAMK4

Intron

2

chr5:115 404 023

289

SINE (Alu)

LOC105379130

Intron

2

chr5:117 973 457

176

LTR (ERVL)

LINC02147

Intron

2

chr5:137 059 136

233

LINE (L2)

SPOCK1

Intron

2

chr5:137 190 010

288

SINE (Alu)

SPOCK1

Intron

2

chr5:142 379 076

311

SINE (Alu)

SPRY4-AS1

Intron

2

chr5:143 631 222

322

SINE (Alu)

LOC105378210

Intron

2

chr5:147 258 152

295

SINE (Alu)

STK32A

Intron

2

chr5:149 537 753

323

SINE (Alu)

CSNK1A1

Intron

2

chr5:152 743 990

315

SINE (Alu)

LINC01470

Intron

2

chr5:153 150 161

314

SINE (Alu)

LINC01470

Intron

2

chr5:155 906 881

2 479

LINE (L1)

SGCD

Intron

2

chr5:159 695 129

315

SINE (Alu)

LOC105377684

Intron

2

chr5:160 600 988

344

SINE (Alu)

ATP10B

Intron

2

chr5:162 530 740

5 454

LINE (L1)

LOC105377697

Intron

2

chr5:162 804 935

314

SINE (Alu)

LOC105377697

Intron

2

chr5:165 068 136

6 104

LINE (L1)

LINC03000

Intron

2

chr5:170 774 321

311

SINE (Alu)

GABRP

Intron

2

chr5:176 305 307

478

Retroposon (SVA)

SIMC1

Intron

2

chr5:176 305 349

130

Retroposon (SVA)

SIMC1

Intron

2

chr5:177 635 730

1 221

LINE (L1)

LOC202181

Intron

2

chr5:178 458 165

62

LINE (L1)

COL23A1

Intron

2

chr6:1 051 552

186

LTR (ERVL)

LINC01622

Intron

2

chr6:2 972 359

303

SINE (Alu)

SERPINB6

Promoter

2

chr6:5 348 526

320

SINE (Alu)

FARS2

Intron

2

chr6:8 110 692

328

SINE (Alu)

LOC105374910

Intron

2

chr6:19 346 204

318

SINE (Alu)

LOC107986575

Intron

2

chr6:20 168 888

314

SINE (Alu)

MBOAT1

Intron

2

chr6:26 994 391

117

SINE (Alu)

LINC00240

Promoter

2

chr6:26 994 391

117

SINE (Alu)

LINC00240

Intron

2

chr6:27 485 062

398

Retroposon (SVA)

LOC105375001

Intron

1

chr6:30 030 705

324

SINE (Alu)

POLR1HASP

Intron

2

chr6:31 021 332

81

LTR (ERV1)

MUC22

Intron

2

chr6:31 471 222

313

SINE (Alu)

HCP5

Intron

2

chr6:31 498 462

143

SINE (Alu)

MICB

Intron

2

chr6:32 518 332

292

SINE (Alu)

HLA-DRB5

Intron

2

chr6:32 520 783

314

SINE (Alu)

HLA-DRB5

Intron

2

chr6:32 523 879

311

SINE (Alu)

HLA-DRB5

Intron

2

chr6:32 525 041

326

SINE (Alu)

HLA-DRB5

Intron

2

chr6:32 528 619

313

SINE (Alu)

HLA-DRB5

Intron

2

chr6:32 529 427

297

SINE (Alu)

HLA-DRB5

Intron

2

chr6:32 667 886

1 001

LTR (ERVK)

HLA-DQB1

Intron

2

chr6:33 247 071

330

SINE (Alu)

LOC105375022

Promoter

2

chr6:34 405 663

329

SINE (Alu)

NUDT3

Intron

2

chr6:38 964 349

343

Retroposon (SVA)

DNAH8

Intron

1

chr6:42 702 567

327

SINE (Alu)

PRPH2

Intron

2

chr6:43 927 736

316

SINE (Alu)

LINC01512

Intron

2

chr6:44 146 440

980

Retroposon (SVA)

TMEM63B

Intron

2

chr6:44 319 523

606

LINE (L2)

SPATS1

Intron

2

chr6:45 292 724

323

SINE (Alu)

SUPT3H

Intron

2

chr6:46 109 870

329

SINE (Alu)

CLIC5

Intron

2

chr6:47 505 628

723

Retroposon (SVA)

CD2AP

Intron

2

chr6:49 487 167

104

LINE (L1)

CENPQ

Intron

2

chr6:51 982 170

1 143

Retroposon (SVA)

PKHD1

Intron

2

chr6:54 849 738

323

SINE (Alu)

FAM83B

Intron

2

chr6:64 126 336

191

SINE (Alu)

EYS

Intron

2

chr6:64 312 991

307

LINE (L1)

EYS

Intron

1

chr6:64 609 588

327

SINE (Alu)

EYS

Intron

2

chr6:65 454 072

308

SINE (Alu)

EYS

Intron

2

chr6:68 932 874

326

SINE (Alu)

ADGRB3

Intron

2

chr6:69 061 776

55

LINE (L1)

ADGRB3

Intron

2

chr6:69 122 017

75

Retroposon (SVA)

ADGRB3

Intron

2

chr6:72 089 797

6 036

LINE (L1)

RIMS1

Intron

2

chr6:73 289 794

141

SINE (Alu)

LOC122539212

Intron

2

chr6:73 601 480

273

Retroposon (SVA)

SLC17A5

Intron

2

chr6:73 795 113

320

SINE (Alu)

CD109

Intron

2

chr6:77 654 536

304

SINE (Alu)

MEI4

Intron

2

chr6:77 707 034

320

SINE (Alu)

MEI4

Intron

2

chr6:81 587 704

321

SINE (Alu)

LOC105377871

Intron

2

chr6:88 947 707

119

Retroposon (SVA)

RNGTT

Intron

2

chr6:88 947 973

84

Retroposon (SVA)

RNGTT

Intron

1

chr6:94 658 640

330

SINE (Alu)

LOC105377901

Intron

2

chr6:96 193 217

1 012

LINE (L1)

FUT9

Intron

2

chr6:96 497 728

68

LINE (L1)

UFL1-AS1

Intron

2

chr6:96 569 793

322

SINE (Alu)

FHL5

Intron

2

chr6:97 803 451

305

SINE (Alu)

LOC101927314

Intron

2

chr6:99 959 608

312

SINE (Alu)

MCHR2

Intron

2

chr6:101 724 118

329

SINE (Alu)

GRIK2

Intron

2

chr6:101 772 687

323

SINE (Alu)

GRIK2

Intron

2

chr6:101 835 882

1 269

LINE (L1)

GRIK2

Intron

2

chr6:107 078 566

137

SINE (Alu)

BEND3

Intron

2

chr6:109 047 036

671

Retroposon (SVA)

SESN1

Intron

2

chr6:109 781 772

289

SINE (Alu)

FIG4

Intron

2

chr6:110 305 536

310

SINE (Alu)

METTL24

Intron

2

chr6:110 404 690

328

SINE (Alu)

DDO

Intron

2

chr6:114 227 232

316

SINE (Alu)

HDAC2-AS2

Intron

2

chr6:114 921 893

75

LINE (L1)

LOC107986639

Intron

2

chr6:116 522 975

318

SINE (Alu)

TRAPPC3L

Intron

2

chr6:118 304 984

293

SINE (Alu)

SLC35F1

Intron

2

chr6:122 658 846

319

SINE (Alu)

PKIB

Intron

2

chr6:129 507 082

327

SINE (Alu)

LAMA2

Intron

2

chr6:130 293 637

283

SINE (Alu)

SAMD3

Intron

2

chr6:130 952 342

320

SINE (Alu)

EPB41L2

Intron

2

chr6:133 410 618

178

SINE (Alu)

EYA4

Intron

2

chr6:136 045 900

278

SINE (Alu)

PDE7B

Intron

2

chr6:136 151 778

70

SINE (Alu)

PDE7B

Intron

1

chr6:142 128 961

6 008

LINE (L1)

NMBR

Intron

2

chr6:143 630 226

311

SINE (Alu)

PHACTR2

Intron

2

chr6:147 874 651

2 642

LINE (L1)

SAMD5

Intron

2

chr6:148 481 014

283

SINE (Alu)

SASH1

Intron

2

chr6:149 574 167

135

SINE (Alu)

GINM1

Intron

2

chr6:149 786 212

53

Retroposon (SVA)

PCMT1

Intron

1

chr6:149 803 477

302

SINE (Alu)

PCMT1

Intron

2

chr6:153 312 233

316

SINE (Alu)

LOC105378066

Intron

2

chr6:158 349 077

262

Retroposon (SVA)

TULP4

Intron

2

chr6:160 915 407

317

SINE (Alu)

LOC105378093

Intron

2

chr6:161 760 223

4 000

LINE (L1)

PRKN

Intron

2

chr6:162 253 763

324

SINE (Alu)

PRKN

Intron

2

chr6:162 592 818

357

SINE (Alu)

PRKN

Intron

2

chr6:166 711 308

318

SINE (Alu)

RPS6KA2

Intron

2

chr6:166 784 176

522

LTR (ERVK)

RPS6KA2

Intron

1

chr6:168 588 126

324

SINE (Alu)

SMOC2

Intron

2

chr6:170 185 527

330

SINE (Alu)

LOC154449

Intron

2

chr7:2 268 722

126

Retroposon (SVA)

SNX8

Intron

2

chr7:2 424 360

337

SINE (Alu)

CHST12

Intron

2

chr7:8 495 321

317

SINE (Alu)

NXPH1

Intron

2

chr7:10 465 285

225

Retroposon (SVA)

MGC4859

Intron

1

chr7:15 423 549

134

LTR (ERVL)

AGMO

Intron

2

chr7:18 282 964

280

SINE (Alu)

HDAC9

Intron

2

chr7:19 478 703

4 744

LINE (L1)

LOC105375180

Intron

2

chr7:20 196 675

326

SINE (Alu)

MACC1

Intron

2

chr7:23 626 049

312

SINE (Alu)

CCDC126

Intron

2

chr7:23 637 669

97

Retroposon (SVA)

CCDC126

Intron

1

chr7:26 168 425

118

LINE (L1)

NFE2L3

Intron

2

chr7:29 145 540

327

SINE (Alu)

CHN2

Intron

2

chr7:31 761 098

80

SINE (MIR)

PDE1C

Intron

2

chr7:36 212 541

319

SINE (Alu)

EEPD1

Intron

2

chr7:37 797 033

310

SINE (Alu)

GPR141

Intron

2

chr7:45 749 603

323

SINE (Alu)

SEPTIN7P2

Intron

2

chr7:47 511 477

334

SINE (Alu)

TNS3

Intron

2

chr7:56 021 026

324

SINE (Alu)

PSPH

Intron

2

chr7:56 021 637

59

SINE (Alu)

PSPH

Intron

2

chr7:64 809 487

125

Retroposon (SVA)

ZNF138

Intron

2

chr7:69 293 439

332

SINE (Alu)

LOC105375345

Intron

2

chr7:74 809 479

193

SINE (Alu)

GTF2IRD2

Intron

2

chr7:80 793 843

330

SINE (Alu)

SEMA3C

Intron

2

chr7:82 372 562

326

SINE (Alu)

CACNA2D1

Intron

2

chr7:82 801 191

314

SINE (Alu)

PCLO

Intron

2

chr7:83 460 624

62

LTR (ERV1)

SEMA3E

Intron

2

chr7:84 299 804

69

SINE (Alu)

SEMA3A

Intron

2

chr7:89 215 579

340

SINE (Alu)

ZNF804B

Intron

2

chr7:95 149 736

327

SINE (Alu)

PPP1R9A

Intron

2

chr7:99 240 044

331

SINE (Alu)

MYH16

Intron

2

chr7:100 948 850

52

SINE (Alu)

MUC3A

Promoter

2

chr7:100 973 079

331

SINE (Alu)

MUC12

Intron

2

chr7:102 549 902

84

SINE (Alu)

POLR2J3-UPK3BL2

Intron

1

chr7:105 255 124

323

SINE (Alu)

SRPK2

Intron

2

chr7:105 825 613

215

SINE (Alu)

ATXN7L1

Intron

2

chr7:108 188 803

6 055

LINE (L1)

NRCAM

Intron

2

chr7:110 844 692

96

LINE (L1)

IMMP2L

Intron

2

chr7:117 121 885

269

SINE (Alu)

ST7

Intron

2

chr7:117 716 192

319

SINE (Alu)

CTTNBP2

Intron

2

chr7:118 443 246

316

SINE (Alu)

ANKRD7

Intron

2

chr7:123 554 487

308

SINE (Alu)

NDUFA5

Intron

2

chr7:128 577 275

307

Retroposon (SVA)

LINC01000

Intron

2

chr7:129 476 166

90

Retroposon (SVA)

STRIP2

Intron

1

chr7:130 591 390

627

Retroposon (SVA)

COPG2

Intron

2

chr7:131 224 137

144

SINE (Alu)

MKLN1

Intron

2

chr7:132 166 350

328

SINE (Alu)

PLXNA4

Intron

2

chr7:133 896 830

176

SINE (Alu)

EXOC4

Intron

2

chr7:139 101 477

378

Retroposon (SVA)

ZC3HAV1

Intron

2

chr7:140 637 145

316

SINE (Alu)

DENND2A

Intron

2

chr7:141 313 777

318

SINE (Alu)

TMEM178B

Intron

2

chr7:154 062 983

236

LTR (ERV1)

DPP6

Intron

2

chr7:154 268 949

311

SINE (Alu)

DPP6

Intron

2

chr7:154 590 554

328

SINE (Alu)

DPP6

Intron

2

chr7:155 367 108

77

Retroposon (SVA)

BLACE

Intron

2

chr7:157 656 078

314

SINE (Alu)

PTPRN2

Intron

2

chr7:158 810 996

126

SINE (Alu)

ESYT2

Intron

2

chr7:902 456

175

SINE (Alu)

ADAP1

Intron

2

chr8:3 769 438

328

SINE (Alu)

CSMD1

Intron

2

chr8:4 595 369

94

LINE (L1)

CSMD1

Intron

2

chr8:6 187 437

317

SINE (Alu)

LOC105377797

Intron

2

chr8:6 196 794

91

LINE (L1)

LOC105377797

Intron

2

chr8:9 062 603

321

SINE (Alu)

ERI1

Intron

2

chr8:9 606 137

312

SINE (Alu)

TNKS

Intron

2

chr8:14 117 908

321

SINE (Alu)

SGCZ

Intron

2

chr8:15 690 996

323

SINE (Alu)

TUSC3

Intron

2

chr8:16 245 296

275

SINE (Alu)

MSR1

Intron

2

chr8:16 674 061

848

LINE (L1)

LOC101929028

Intron

2

chr8:22 625 878

328

SINE (Alu)

BIN3

Intron

2

chr8:22 922 448

349

SINE (Alu)

PEBP4

Intron

2

chr8:25 315 133

299

SINE (Alu)

DOCK5

Intron

2

chr8:28 684 943

129

LINE (L1)

EXTL3

Intron

2

chr8:32 502 454

314

SINE (Alu)

NRG1

Intron

2

chr8:32 514 935

197

LINE (L1)

NRG1

Intron

2

chr8:33 904 132

284

SINE (Alu)

LOC105379364

Intron

2

chr8:39 006 540

313

SINE (Alu)

ADAM9

Promoter

2

chr8:39 006 540

313

SINE (Alu)

ADAM9

Intron

2

chr8:42 182 377

309

SINE (Alu)

PLAT

Intron

2

chr8:43 179 659

97

Retroposon (SVA)

HGSNAT

Promoter

2

chr8:43 179 659

97

Retroposon (SVA)

HGSNAT

Intron

2

chr8:60 614 219

321

SINE (Alu)

RAB2A

Intron

2

chr8:62 431 909

322

SINE (Alu)

NKAIN3

Intron

2

chr8:64 686 416

77

Retroposon (SVA)

CYP7B1

Intron

2

chr8:65 662 664

73

Retroposon (SVA)

MTFR1

Intron

2

chr8:66 469 644

229

LINE (L1)

VXN

Intron

2

chr8:68 069 556

328

SINE (Alu)

PREX2

Intron

2

chr8:71 293 804

324

SINE (Alu)

EYA1

Intron

2

chr8:74 150 320

318

SINE (Alu)

LOC105375903

Intron

2

chr8:74 463 097

317

SINE (Alu)

GDAP1

Intron

2

chr8:79 838 639

319

SINE (Alu)

LOC101927040

Intron

2

chr8:84 525 028

307

SINE (Alu)

RALYL

Intron

2

chr8:86 067 390

320

SINE (Alu)

PSKH2

Intron

2

chr8:86 964 152

73

LTR (ERV1)

CNBD1

Intron

2

chr8:90 686 770

520

LTR (ERV1)

LOC105375633

Intron

2

chr8:95 645 037

325

SINE (Alu)

CFAP418-AS1

Intron

2

chr8:109 089 362

320

SINE (Alu)

TRHR

Intron

2

chr8:109 337 070

299

SINE (Alu)

ENY2

Intron

2

chr8:119 788 537

232

SINE (Alu)

TAF2

Intron

2

chr8:121 651 129

300

SINE (Alu)

HAS2-AS1

Intron

2

chr8:121 718 766

321

SINE (Alu)

HAS2-AS1

Intron

2

chr8:124 877 714

282

SINE (Alu)

LINC00964

Intron

2

chr8:125 011 860

338

SINE (Alu)

SQLE

Intron

2

chr8:125 327 683

354

SINE (Alu)

NSMCE2

Intron

2

chr8:126 853 220

291

SINE (Alu)

LOC105375751

Intron

2

chr8:127 025 866

323

SINE (Alu)

LOC105375751

Intron

2

chr8:127 316 914

204

Retroposon (SVA)

PCAT1

Intron

2

chr8:128 825 943

177

Retroposon (SVA)

LINC00976

Intron

2

chr8:129 258 242

278

SINE (Alu)

CCDC26

Intron

2

chr8:129 699 948

330

SINE (Alu)

GSDMC

Intron

2

chr8:131 930 463

323

SINE (Alu)

EFR3A

Intron

2

chr8:134 867 666

112

LINE (CR1)

LOC101927845

Intron

2

chr8:138 313 721

312

SINE (Alu)

FAM135B

Intron

2

chr8:140 037 950

330

SINE (Alu)

TRAPPC9

Intron

2

chr8:140 950 042

69

LTR (ERV1)

PTK2

Intron

2

chr8:144 347 172

291

SINE (Alu)

SLC52A2

Intron

2

chr9:7 852 522

327

SINE (Alu)

DMAC1

Intron

2

chr9:10 461 250

314

SINE (Alu)

PTPRD

Intron

2

chr9:15 234 394

125

Retroposon (SVA)

TTC39B

Intron

2

chr9:17 062 588

337

SINE (Alu)

LOC105375983

Intron

2

chr9:19 365 709

95

SINE (Alu)

DENND4C

Intron

2

chr9:28 195 374

312

SINE (Alu)

LINGO2

Intron

2

chr9:28 960 602

322

SINE (Alu)

LINGO2

Intron

2

chr9:32 463 887

169

LINE (L1)

RIGI

Intron

2

chr9:33 130 551

2 045

Retroposon (SVA)

B4GALT1

Intron

2

chr9:34 115 379

299

SINE (Alu)

DCAF12

Intron

2

chr9:36 645 303

309

SINE (Alu)

MELK

Intron

2

chr9:37 190 303

317

SINE (Alu)

ZCCHC7

Intron

2

chr9:37 596 333

324

SINE (Alu)

SHB

Intron

2

chr9:41 047 836

788

LINE (L1)

FRG1HP

Intron

2

chr9:63 838 317

308

SINE (Alu)

FRG1JP

Intron

2

chr9:67 083 505

299

SINE (Alu)

CNTNAP3P2

Intron

2

chr9:70 801 716

315

SINE (Alu)

TRPM3

Intron

2

chr9:70 974 307

132

SINE (Alu)

TRPM3

Intron

2

chr9:72 616 616

313

SINE (Alu)

TMC1

Intron

2

chr9:72 800 719

333

SINE (Alu)

TMC1

Intron

2

chr9:72 806 377

97

Retroposon (SVA)

TMC1

Intron

2

chr9:76 063 871

455

Retroposon (SVA)

PCSK5

Intron

2

chr9:76 337 135

325

SINE (Alu)

PCSK5

Intron

2

chr9:90 432 247

306

SINE (Alu)

LINC01508

Intron

2

chr9:94 147 772

315

SINE (Alu)

LOC107987099

Promoter

2

chr9:94 497 740

318

SINE (Alu)

LOC107987100

Intron

2

chr9:104 984 603

727

Retroposon (SVA)

CT70

Intron

2

chr9:110 564 791

330

SINE (Alu)

SVEP1

Intron

2

chr9:110 729 242

325

SINE (Alu)

MUSK

Intron

2

chr9:112 514 852

225

Retroposon (SVA)

KIAA1958

Intron

1

chr9:116 840 552

349

Retroposon (SVA)

LOC105376239

Intron

2

chr9:116 840 602

562

Retroposon (SVA)

LOC105376239

Intron

2

chr9:121 971 181

299

Retroposon (SVA)

TTLL11

Intron

1

chr9:123 802 496

79

LINE (L2)

DENND1A

Intron

2

chr9:125 458 887

432

Retroposon (SVA)

MAPKAP1

Intron

2

chr9:125 577 664

257

Retroposon (SVA)

MAPKAP1

Intron

2

chr9:125 780 971

116

Retroposon (SVA)

PBX3

Intron

2

chr9:129 442 922

966

LTR (ERVK)

LOC105376291

Intron

2

chr9:131 414 408

3 392

Retroposon (SVA)

PRRC2B

Intron

2

chr9:136 074 438

479

SINE (Alu)

NACC2

Intron

2

chr9:262 447

323

SINE (Alu)

DOCK8

Intron

2

chr9:848 895

334

SINE (Alu)

DMRT1

Intron

2

chr10:6 206 499

76

Retroposon (SVA)

PFKFB3

Intron

2

chr10:6 206 834

110

Retroposon (SVA)

PFKFB3

Intron

2

chr10:6 229 148

313

SINE (Alu)

PFKFB3

Intron

2

chr10:9 862 428

325

SINE (Alu)

LINC02663

Intron

2

chr10:11 942 951

322

SINE (Alu)

UPF2

Intron

2

chr10:12 625 627

324

SINE (Alu)

CAMK1D

Intron

2

chr10:14 442 801

327

SINE (Alu)

FRMD4A

Intron

2

chr10:21 057 588

49

SINE (Alu)

NEBL

Intron

2

chr10:24 656 758

304

Retroposon (SVA)

ARHGAP21

Intron

1

chr10:25 198 984

334

SINE (Alu)

GPR158

Intron

2

chr10:25 418 756

6 044

LINE (L1)

GPR158

Intron

2

chr10:25 668 385

326

SINE (Alu)

LINC00836

Intron

2

chr10:25 937 005

320

SINE (Alu)

MYO3A

Intron

2

chr10:26 564 035

318

SINE (Alu)

APBB1IP

Intron

2

chr10:26 587 715

268

SINE (Alu)

LINC03028

Intron

1

chr10:26 672 154

180

SINE (Alu)

SELENOOLP

Intron

2

chr10:28 813 597

315

SINE (Alu)

LINC01517

Intron

2

chr10:28 816 354

312

SINE (Alu)

LINC01517

Intron

2

chr10:29 729 670

173

SINE (Alu)

SVIL

Intron

2

chr10:32 647 469

54

SINE (Alu)

CCDC7

Intron

2

chr10:34 256 742

315

SINE (Alu)

PARD3

Intron

2

chr10:42 754 636

324

SINE (Alu)

LOC283028

Promoter

2

chr10:46 647 422

322

SINE (Alu)

SHLD2P1

Intron

2

chr10:46 876 544

302

SINE (Alu)

FRMPD2B

Promoter

2

chr10:46 876 544

302

SINE (Alu)

FRMPD2B

Intron

2

chr10:50 479 035

342

SINE (Alu)

SGMS1

Intron

2

chr10:52 707 167

322

SINE (Alu)

LNCAROD

Intron

2

chr10:54 167 771

82

LTR (ERV1)

PCDH15

Intron

2

chr10:54 223 519

325

SINE (Alu)

PCDH15

Intron

2

chr10:55 002 597

62

LTR (ERV1)

PCDH15

Intron

2

chr10:58 757 476

317

SINE (Alu)

BICC1

Intron

2

chr10:59 225 142

323

SINE (Alu)

PHYHIPL

Intron

2

chr10:60 365 085

294

SINE (Alu)

ANK3

Intron

2

chr10:65 671 223

326

SINE (Alu)

LINC01515

Intron

2

chr10:66 576 999

327

SINE (Alu)

CTNNA3

Intron

2

chr10:68 235 132

326

SINE (Alu)

LINC02640

Intron

2

chr10:68 524 360

314

SINE (Alu)

SLC25A16

Intron

2

chr10:69 850 406

317

SINE (Alu)

COL13A1

Intron

2

chr10:70 407 971

370

Retroposon (SVA)

EIF4EBP2

Intron

2

chr10:70 845 655

316

SINE (Alu)

SGPL1

Intron

2

chr10:71 433 771

327

SINE (Alu)

CDH23

Intron

2

chr10:74 470 576

142

LINE (L1)

ADK

Intron

2

chr10:75 333 727

146

Retroposon (SVA)

ZNF503-AS1

Intron

1

chr10:78 310 298

186

SINE (Alu)

LOC105378375

Intron

2

chr10:80 543 915

208

LTR (ERV1)

SH2D4B

Intron

1

chr10:84 223 486

321

SINE (Alu)

LRIT2

Intron

2

chr10:86 016 234

309

SINE (Alu)

GRID1

Intron

2

chr10:87 689 317

221

SINE (Alu)

PAPSS2

Intron

1

chr10:89 350 312

110

SINE (Alu)

IFIT3

Intron

2

chr10:90 087 413

55

LTR (ERV1)

LINC01374

Intron

2

chr10:90 455 298

313

SINE (Alu)

LINC02653

Intron

2

chr10:90 467 738

317

SINE (Alu)

LINC02653

Intron

2

chr10:92 975 822

224

Retroposon (SVA)

EXOC6

Intron

2

chr10:94 824 978

395

LINE (L1)

CYP2C19

Intron

2

chr10:95 908 766

315

SINE (Alu)

ENTPD1-AS1

Promoter

2

chr10:95 908 766

315

SINE (Alu)

CC2D2B

Intron

2

chr10:99 838 925

581

Retroposon (SVA)

ABCC2

Intron

1

chr10:101 886 348

303

SINE (Alu)

ARMH3

Intron

2

chr10:101 975 999

322

SINE (Alu)

ARMH3

Intron

2

chr10:102 036 205

141

Retroposon (SVA)

ARMH3

Intron

2

chr10:104 057 438

192

SINE (Alu)

COL17A1

Intron

2

chr10:105 095 699

312

SINE (Alu)

SORCS3

Intron

2

chr10:110 251 006

310

SINE (Alu)

MXI1

Intron

2

chr10:112 314 098

311

SINE (Alu)

GUCY2GP

Intron

2

chr10:122 804 291

333

SINE (Alu)

DMBT1L1

Intron

2

chr10:122 976 472

318

SINE (Alu)

PSTK

Intron

2

chr10:127 392 027

314

SINE (Alu)

DOCK1

Intron

2

chr10:130 096 568

97

LINE (L1)

C10orf143

Intron

2

chr10:130 347 306

321

SINE (Alu)

LINC02646

Intron

2

chr10:133 217 518

117

SINE (Alu)

KNDC1

Intron

2

chr11:1 576 988

66

SINE (Alu)

KRTAP5-AS1

Intron

2

chr11:2 749 569

123

SINE (Alu)

KCNQ1

Intron

2

chr11:4 729 983

332

SINE (Alu)

MMP26

Intron

2

chr11:4 886 716

232

SINE (Alu)

MMP26

Intron

2

chr11:5 863 905

318

SINE (Alu)

TRIM5

Intron

2

chr11:7 331 217

328

SINE (Alu)

SYT9

Intron

2

chr11:7 591 452

321

SINE (Alu)

PPFIBP2

Intron

2

chr11:8 424 808

318

SINE (Alu)

STK33

Intron

2

chr11:8 865 752

319

SINE (Alu)

DENND2B

Intron

2

chr11:13 791 469

335

SINE (Alu)

LINC02548

Intron

2

chr11:15 998 427

322

SINE (Alu)

SOX6

Intron

2

chr11:16 888 339

142

Retroposon (SVA)

PLEKHA7

Intron

1

chr11:19 860 077

224

Retroposon (SVA)

NAV2

Intron

2

chr11:22 241 253

123

LINE (L1)

ANO5

Intron

2

chr11:22 243 730

1 119

LINE (L1)

ANO5

Intron

1

chr11:26 271 711

299

SINE (Alu)

ANO3

Intron

2

chr11:33 653 937

317

SINE (Alu)

KIAA1549L

Intron

2

chr11:41 145 483

312

LTR (ERV1)

LRRC4C

Intron

2

chr11:45 738 485

275

Retroposon (SVA)

LOC100507384

Intron

2

chr11:47 299 622

52

SINE (Alu)

MADD

Intron

2

chr11:47 785 087

291

SINE (Alu)

NUP160

Intron

2

chr11:49 634 261

300

SINE (Alu)

GRM5P1

Intron

2

chr11:58 404 363

1 494

LINE (L1)

OR5B3

Intron

2

chr11:59 645 320

382

Retroposon (SVA)

PATL1

Intron

2

chr11:63 893 356

258

LINE (L1)

MARK2

Intron

2

chr11:64 161 757

135

SINE (Alu)

MACROD1

Intron

2

chr11:65 239 594

127

Retroposon (SVA)

SLC22A20P

Intron

1

chr11:67 222 629

532

Retroposon (SVA)

KDM2A

Intron

2

chr11:74 270 503

262

SINE (Alu)

P4HA3

Promoter

2

chr11:74 270 503

262

SINE (Alu)

P4HA3

Intron

2

chr11:74 353 855

75

Retroposon (SVA)

PGM2L1

Intron

2

chr11:74 556 415

56

SINE (Alu)

POLD3

Intron

2

chr11:74 656 964

91

LINE (L1)

POLD3

Intron

2

chr11:76 619 299

602

Retroposon (SVA)

LINC02757

Intron

2

chr11:77 098 714

222

Retroposon (SVA)

CAPN5

Intron

2

chr11:77 279 524

313

SINE (Alu)

GDPD4

Intron

2

chr11:78 879 312

712

Retroposon (SVA)

TENM4

Intron

2

chr11:82 182 179

92

Retroposon (SVA)

MIR4300HG

Intron

2

chr11:83 018 315

60

LINE (L1)

RAB30

Intron

2

chr11:87 154 955

166

LINE (L1)

TMEM135

Intron

1

chr11:89 824 135

56

LINE (L1)

LOC642414

Intron

1

chr11:90 267 331

185

LINE (L1)

DISC1FP1

Intron

2

chr11:92 875 310

312

SINE (Alu)

FAT3

Intron

2

chr11:96 289 863

337

SINE (Alu)

MAML2

Intron

2

chr11:99 858 677

325

SINE (Alu)

CNTN5

Intron

2

chr11:100 910 650

323

SINE (Alu)

ARHGAP42

Intron

2

chr11:102 477 579

220

SINE (Alu)

LOC102723838

Intron

2

chr11:103 330 537

322

SINE (Alu)

DYNC2H1

Intron

2

chr11:103 921 859

326

SINE (Alu)

PDGFD

Intron

2

chr11:104 915 862

321

SINE (Alu)

CASP4LP

Intron

2

chr11:117 251 250

86

Retroposon (SVA)

RNF214

Intron

2

chr11:119 253 538

265

Retroposon (SVA)

CBL

Intron

2

chr11:127 033 276

330

SINE (Alu)

LOC101929473

Intron

2

chr11:130 178 391

127

LTR (ERVL)

ST14

Intron

2

chr11:134 435 746

316

LINE (L1)

B3GAT1-DT

Promoter

2

chr11:134 435 746

316

LINE (L1)

B3GAT1-DT

Intron

2

chr11:428 013

320

SINE (Alu)

ANO9

Intron

2

chr11:696 721

134

SINE (Alu)

EPS8L2

Intron

2

chr12:1 543 322

423

SINE (Alu)

WNT5B

Intron

2

chr12:4 661 707

310

SINE (Alu)

NDUFA9

Intron

2

chr12:5 660 425

298

SINE (Alu)

ANO2

Intron

2

chr12:8 184 242

413

Retroposon (SVA)

ZNF705A

Intron

2

chr12:9 349 116

79

Retroposon (SVA)

LINC02367

Intron

2

chr12:10 081 587

318

SINE (Alu)

CLEC1A

Intron

2

chr12:10 808 238

287

SINE (Alu)

TAS2R8

Promoter

2

chr12:11 026 423

307

SINE (Alu)

PRH1-PRR4

Intron

2

chr12:11 092 597

132

LTR (ERV1)

TAS2R43

Promoter

1

chr12:11 092 597

132

LTR (ERV1)

PRH1-PRR4

Intron

1

chr12:12 780 744

1 779

LINE (L1)

APOLD1

Intron

2

chr12:18 215 860

319

SINE (Alu)

RERGL

Intron

2

chr12:19 653 272

288

SINE (Alu)

AEBP2

Intron

2

chr12:20 853 921

319

SINE (Alu)

SLCO1B3

Intron

2

chr12:21 933 008

332

SINE (Alu)

ABCC9

Intron

2

chr12:24 298 781

318

SINE (Alu)

SOX5

Intron

2

chr12:24 365 676

322

SINE (Alu)

SOX5

Intron

2

chr12:27 711 861

314

SINE (Alu)

MRPS35

Intron

2

chr12:28 285 662

314

SINE (Alu)

CCDC91

Intron

2

chr12:29 670 962

312

SINE (Alu)

TMTC1

Intron

2

chr12:31 650 024

315

SINE (Alu)

ETFBKMT

Intron

2

chr12:31 923 477

315

SINE (Alu)

LINC02422

Intron

2

chr12:32 205 714

332

SINE (Alu)

BICD1

Intron

2

chr12:32 270 114

317

SINE (Alu)

BICD1

Intron

2

chr12:40 438 982

305

SINE (Alu)

MUC19

Intron

2

chr12:43 524 175

1 073

LINE (L1)

ADAMTS20

Intron

2

chr12:47 918 691

320

SINE (Alu)

VDR

Intron

2

chr12:48 842 516

125

Retroposon (SVA)

DDX23

Intron

1

chr12:48 842 675

127

Retroposon (SVA)

DDX23

Intron

1

chr12:50 604 178

3 150

Retroposon (SVA)

DIP2B

Intron

2

chr12:50 776 325

307

SINE (Alu)

ATF1

Intron

2

chr12:56 075 811

182

Retroposon (SVA)

ERBB3

Promoter

1

chr12:56 558 296

304

SINE (Alu)

RBMS2

Intron

2

chr12:64 029 802

87

SINE (Alu)

SRGAP1

Intron

2

chr12:64 204 038

84

LINE (L1)

KICS2

Intron

2

chr12:64 783 846

187

SINE (Alu)

TBC1D30

Intron

2

chr12:66 617 787

329

SINE (Alu)

GRIP1

Intron

2

chr12:69 583 782

343

SINE (Alu)

MIR3913-2

Promoter

2

chr12:69 728 845

326

SINE (Alu)

LOC101928002

Intron

2

chr12:70 086 432

62

LTR (ERV1)

PRANCR

Intron

1

chr12:71 131 684

320

SINE (Alu)

TSPAN8

Intron

2

chr12:78 003 152

327

SINE (Alu)

NAV3

Intron

2

chr12:85 112 496

780

LINE (L1)

LRRIQ1

Intron

2

chr12:86 811 026

109

LINE (L1)

MGAT4C

Intron

2

chr12:95 907 463

50

Retroposon (SVA)

CCDC38

Intron

2

chr12:99 387 859

178

SINE (Alu)

ANKS1B

Intron

2

chr12:100 294 427

196

Retroposon (SVA)

SCYL2

Intron

1

chr12:101 484 137

2 731

Retroposon (SVA)

SPIC

Intron

2

chr12:104 923 205

186

SINE (Alu)

SLC41A2

Intron

2

chr12:116 733 345

170

SINE (Alu)

SPRING1

Intron

2

chr12:117 749 119

3 757

LINE (L1)

KSR2

Intron

2

chr12:122 237 736

78

SINE (Alu)

VPS33A

Intron

2

chr12:124 073 310

308

SINE (Alu)

ZNF664

Intron

2

chr12:126 318 381

6 044

LINE (L1)

LINC02350

Intron

2

chr12:126 405 316

330

SINE (Alu)

LINC02350

Intron

2

chr12:131 926 421

80

Retroposon (SVA)

LOC107984455

Intron

1

chr12:132 789 701

56

SINE (Alu)

GOLGA3

Intron

1

chr12:132 868 562

181

SINE (Alu)

CHFR

Intron

1

chr12:132 892 413

238

SINE (Alu)

CHFR

Intron

2

chr12:132 935 638

124

SINE (Alu)

CHFR

Intron

2

chr12:132 939 900

260

LTR (ERV1)

CHFR

Intron

1

chr12:676 192

133

SINE (Alu)

LINC02455

Intron

2

chr12:947 963

322

SINE (Alu)

RAD52

Intron

2

chr13:18 849 237

324

SINE (Alu)

ANKRD20A9P

Intron

2

chr13:21 320 624

287

SINE (Alu)

MIPEPP3

Intron

2

chr13:21 448 212

145

Retroposon (SVA)

ZDHHC20

Intron

2

chr13:21 448 382

77

Retroposon (SVA)

ZDHHC20

Intron

2

chr13:24 046 535

340

SINE (Alu)

SPATA13

Intron

2

chr13:24 937 860

322

SINE (Alu)

TPTE2P1

Intron

2

chr13:25 878 480

142

LTR (ERV1)

ATP8A2

Intron

2

chr13:28 964 736

319

SINE (Alu)

MTUS2

Intron

2

chr13:28 990 621

67

LTR (ERV1)

MTUS2

Intron

2

chr13:34 541 017

96

Retroposon (SVA)

LINC02343

Intron

2

chr13:38 878 388

315

SINE (Alu)

FREM2

Intron

2

chr13:40 955 542

97

Retroposon (SVA)

ELF1

Intron

2

chr13:41 881 714

126

Retroposon (SVA)

VWA8

Intron

2

chr13:42 197 253

391

LINE (L1)

DGKH

Intron

2

chr13:42 365 942

336

SINE (Alu)

LINC02341

Intron

1

chr13:42 476 441

73

Retroposon (SVA)

LINC02341

Intron

1

chr13:43 416 183

444

Retroposon (SVA)

ENOX1

Intron

2

chr13:45 485 419

767

Retroposon (SVA)

COG3

Intron

1

chr13:46 073 596

309

SINE (Alu)

CPB2-AS1

Intron

2

chr13:46 470 173

298

SINE (Alu)

LINC01198

Promoter

2

chr13:46 470 173

298

SINE (Alu)

LINC01198

Intron

2

chr13:50 337 937

286

SINE (Alu)

DLEU1

Intron

2

chr13:60 037 032

130

LINE (L1)

DIAPH3-AS1

Intron

2

chr13:60 715 401

389

LINE (L1)

LINC00378

Intron

2

chr13:60 758 288

311

SINE (Alu)

LINC00378

Intron

2

chr13:60 888 199

6 032

LINE (L1)

LINC00378

Intron

2

chr13:67 329 321

238

SINE (Alu)

LINC00364

Intron

2

chr13:78 010 527

313

SINE (Alu)

OBI1-AS1

Intron

2

chr13:78 077 535

314

SINE (Alu)

OBI1-AS1

Intron

2

chr13:78 185 608

327

SINE (Alu)

OBI1-AS1

Intron

2

chr13:80 948 934

328

SINE (Alu)

LOC105370278

Intron

2

chr13:84 899 424

221

SINE (Alu)

LOC105370290

Intron

2

chr13:89 749 575

326

SINE (Alu)

LOC107984621

Intron

2

chr13:91 609 018

322

SINE (Alu)

GPC5

Intron

2

chr13:91 861 711

295

SINE (Alu)

GPC5

Intron

2

chr13:92 172 972

321

SINE (Alu)

GPC5

Intron

2

chr13:92 538 791

212

LINE (L1)

GPC5

Intron

2

chr13:92 587 527

320

SINE (Alu)

GPC5

Intron

2

chr13:98 151 042

326

SINE (Alu)

FARP1

Intron

2

chr13:100 883 706

315

SINE (Alu)

NALCN-AS1

Intron

2

chr13:101 737 015

334

SINE (Alu)

FGF14

Intron

2

chr13:110 424 450

318

SINE (Alu)

COL4A2

Promoter

2

chr13:110 424 450

318

SINE (Alu)

COL4A2

Intron

2

chr13:110 674 419

325

SINE (Alu)

CARS2

Intron

2

chr13:110 959 391

247

SINE (Alu)

LOC105370364

Intron

2

chr13:112 678 489

81

Retroposon (SVA)

ATP11AUN

Intron

2

chr13:112 866 638

313

SINE (Alu)

ATP11A

Intron

2

chr13:112 937 994

217

LTR (ERV1)

MCF2L

Intron

1

chr13:113 357 053

132

SINE (Alu)

GRTP1-AS1

Intron

2

chr13:113 961 471

316

SINE (Alu)

C13orf46

Intron

2

chr14:20 016 135

351

SINE (Alu)

OR4K14

Intron

2

chr14:21 573 514

327

SINE (Alu)

OR10G3

Intron

2

chr14:22 637 543

523

Retroposon (SVA)

OR6J1

Intron

1

chr14:23 975 026

311

LINE (L1)

DHRS4L2

Intron

2

chr14:24 212 676

164

SINE (Alu)

CHMP4A

Promoter

1

chr14:24 212 676

164

SINE (Alu)

TM9SF1

Intron

1

chr14:24 473 723

118

LTR (ERV1)

LOC101927045

Intron

2

chr14:27 832 044

438

LINE (L1)

MIR3171HG

Intron

2

chr14:30 712 057

330

SINE (Alu)

SCFD1

Intron

2

chr14:30 975 089

307

SINE (Alu)

STRN3

Intron

2

chr14:34 024 131

313

SINE (Alu)

LOC102724945

Intron

2

chr14:37 555 345

126

Retroposon (SVA)

MIPOL1

Intron

2

chr14:39 843 742

321

SINE (Alu)

LOC105370462

Intron

2

chr14:40 110 466

324

SINE (Alu)

LOC105370462

Intron

2

chr14:40 123 223

131

SINE (Alu)

LOC105370462

Intron

2

chr14:44 053 098

307

SINE (Alu)

LINC02307

Intron

2

chr14:51 252 267

311

SINE (Alu)

TMX1

Intron

2

chr14:52 837 362

55

LTR (ERV1)

LOC105370500

Intron

2

chr14:53 311 386

324

SINE (Alu)

LOC105370502

Intron

2

chr14:55 329 133

310

SINE (Alu)

FBXO34

Intron

2

chr14:57 041 271

329

SINE (Alu)

OTX2-AS1

Intron

2

chr14:59 987 435

326

SINE (Alu)

LRRC9

Intron

2

chr14:60 065 669

319

SINE (Alu)

PCNX4-DT

Intron

2

chr14:60 108 770

313

SINE (Alu)

PCNX4

Intron

2

chr14:62 759 564

331

SINE (Alu)

KCNH5

Intron

2

chr14:64 038 277

388

Retroposon (SVA)

SYNE2

Intron

2

chr14:70 397 976

57

LTR (ERV1)

SYNJ2BP-COX16

Intron

2

chr14:70 813 500

127

SINE (Alu)

MAP3K9-DT

Intron

2

chr14:73 353 583

134

SINE (Alu)

NUMB

Intron

2

chr14:75 032 865

321

SINE (Alu)

MLH3

Intron

2

chr14:78 516 349

330

SINE (Alu)

NRXN3

Intron

2

chr14:80 488 209

1 887

LINE (L1)

CEP128

Intron

2

chr14:80 495 706

339

SINE (Alu)

CEP128

Intron

2

chr14:81 320 428

2 695

Retroposon (SVA)

STON2

Intron

2

chr14:85 915 450

5 707

LINE (L1)

LINC02328

Intron

2

chr14:88 276 264

297

SINE (Alu)

KCNK10

Intron

2

chr14:89 608 202

143

SINE (Alu)

FOXN3

Intron

1

chr14:89 788 452

266

SINE (Alu)

FOXN3

Intron

2

chr14:89 788 466

133

SINE (Alu)

FOXN3

Intron

2

chr14:90 797 289

171

SINE (Alu)

TTC7B

Intron

2

chr14:91 658 708

316

SINE (Alu)

CATSPERB

Intron

2

chr14:100 345 058

95

Retroposon (SVA)

WARS1

Intron

2

chr15:25 490 505

321

SINE (Alu)

LINC02250

Intron

2

chr15:27 520 633

323

SINE (Alu)

GABRG3

Intron

2

chr15:27 930 643

392

LINE (L1)

OCA2

Intron

2

chr15:30 674 565

185

SINE (Alu)

LOC100288637

Intron

2

chr15:32 821 095

312

SINE (Alu)

FMN1

Intron

2

chr15:34 346 662

81

SINE (Alu)

NUTM1

Intron

2

chr15:35 804 106

310

SINE (Alu)

DPH6-DT

Intron

2

chr15:37 415 687

667

LINE (L1)

LOC105370772

Intron

2

chr15:38 477 226

335

SINE (Alu)

FAM98B

Intron

2

chr15:39 894 051

98

Retroposon (SVA)

GPR176

Intron

2

chr15:40 422 765

179

SINE (Alu)

IVD

Intron

2

chr15:43 076 793

126

Retroposon (SVA)

UBR1

Intron

2

chr15:45 277 713

311

SINE (Alu)

SLC28A2-AS1

Intron

2

chr15:47 279 101

87

LINE (L1)

SEMA6D

Intron

2

chr15:60 365 043

311

SINE (Alu)

ANXA2

Intron

2

chr15:60 924 332

322

SINE (Alu)

RORA

Intron

2

chr15:66 375 798

323

SINE (Alu)

TIPIN

Intron

2

chr15:67 352 554

338

SINE (Alu)

IQCH

Intron

2

chr15:68 395 669

4 441

LINE (L1)

ITGA11

Intron

2

chr15:70 861 401

310

SINE (Alu)

LRRC49

Intron

2

chr15:71 757 533

132

SINE (Alu)

THSD4

Intron

2

chr15:72 347 195

319

SINE (Alu)

HEXA

Promoter

2

chr15:72 347 195

319

SINE (Alu)

LOC105370887

Intron

2

chr15:73 690 968

322

SINE (Alu)

CD276

Intron

2

chr15:75 481 597

400

Retroposon (SVA)

PTPN9

Intron

1

chr15:75 503 556

192

Retroposon (SVA)

PTPN9

Intron

2

chr15:75 504 155

142

Retroposon (SVA)

PTPN9

Intron

2

chr15:76 230 513

82

SINE (Alu)

ETFA

Intron

2

chr15:77 469 236

324

SINE (Alu)

HMG20A

Intron

2

chr15:78 132 274

163

SINE (Alu)

CIB2

Promoter

2

chr15:78 132 274

163

SINE (Alu)

IDH3A

Intron

2

chr15:78 644 312

319

SINE (Alu)

CHRNB4

Intron

2

chr15:80 355 807

93

SINE (Alu)

ARNT2-DT

Intron

2

chr15:80 370 223

315

SINE (Alu)

ARNT2-DT

Intron

2

chr15:81 100 242

315

SINE (Alu)

CFAP161

Intron

2

chr15:84 854 228

317

SINE (Alu)

ALPK3

Intron

2

chr15:84 900 312

68

SINE (Alu)

SLC28A1

Intron

1

chr15:85 681 718

329

SINE (Alu)

AKAP13

Promoter

2

chr15:85 681 718

329

SINE (Alu)

AKAP13

Intron

2

chr15:89 854 811

78

Retroposon (SVA)

AP3S2

Intron

1

chr15:93 023 921

317

SINE (Alu)

CHD2

Intron

2

chr15:93 292 547

316

SINE (Alu)

LOC105370982

Intron

2

chr15:94 276 660

304

SINE (Alu)

MCTP2

Intron

2

chr15:100 270 770

308

SINE (Alu)

ADAMTS17

Intron

2

chr15:100 272 601

317

SINE (Alu)

ADAMTS17

Intron

2

chr16:1 599 469

805

Retroposon (SVA)

LOC105371046

Intron

2

chr16:2 052 218

328

SINE (Alu)

TSC2

Intron

2

chr16:3 039 306

321

SINE (Alu)

MMP25-AS1

Intron

2

chr16:5 202 370

223

Retroposon (SVA)

LOC105371067

Intron

1

chr16:5 295 020

319

SINE (Alu)

RBFOX1

Intron

2

chr16:6 743 824

1 435

LINE (L1)

RBFOX1

Intron

2

chr16:7 176 223

327

SINE (Alu)

RBFOX1

Intron

2

chr16:7 491 379

315

SINE (Alu)

RBFOX1

Intron

2

chr16:11 336 032

294

Retroposon (SVA)

LOC105371082

Intron

2

chr16:13 437 866

55

SINE (Alu)

SHISA9

Intron

2

chr16:21 227 729

317

SINE (Alu)

LOC105371123

Intron

2

chr16:24 109 272

488

Retroposon (SVA)

PRKCB

Intron

2

chr16:24 316 243

316

SINE (Alu)

CACNG3

Intron

2

chr16:28 697 996

49

Retroposon (SVA)

EIF3C

Intron

1

chr16:31 105 127

143

Retroposon (SVA)

BCKDK

Promoter

2

chr16:56 739 527

819

Retroposon (SVA)

NUP93

Intron

1

chr16:59 942 554

317

SINE (Alu)

LINC02141

Intron

2

chr16:60 007 242

316

SINE (Alu)

LINC02141

Intron

2

chr16:65 448 283

314

SINE (Alu)

LINC00922

Intron

2

chr16:69 157 890

318

SINE (Alu)

UTP4

Intron

2

chr16:69 361 930

323

SINE (Alu)

TERF2

Promoter

2

chr16:69 361 930

323

SINE (Alu)

TERF2

Intron

2

chr16:69 820 419

53

SINE (Alu)

WWP2

Intron

2

chr16:71 733 511

74

SINE (Alu)

AP1G1

Intron

2

chr16:72 695 339

1 624

LINE (L1)

ZFHX3-AS1

Intron

2

chr16:79 156 823

327

SINE (Alu)

WWOX

Intron

2

chr16:80 183 526

322

SINE (Alu)

DYNLRB2-AS1

Intron

2

chr16:82 131 072

300

SINE (Alu)

HSD17B2-AS1

Intron

2

chr16:83 099 623

334

SINE (Alu)

CDH13

Intron

2

chr16:83 632 754

331

SINE (Alu)

CDH13

Intron

2

chr16:89 224 966

321

SINE (Alu)

ZNF778

Intron

2

chr16:942 520

68

LINE (L1)

LMF1

Intron

2

chr17:1 212 117

320

SINE (Alu)

ABR

Intron

2

chr17:2 448 174

125

Retroposon (SVA)

METTL16

Intron

2

chr17:3 284 831

262

SINE (Alu)

OR3A2

Promoter

2

chr17:3 284 831

262

SINE (Alu)

OR3A2

Intron

2

chr17:3 544 162

132

SINE (Alu)

TRPV3

Intron

2

chr17:9 269 002

133

SINE (Alu)

STX8

Intron

2

chr17:11 972 684

57

LTR (ERV1)

ZNF18

Intron

2

chr17:13 896 324

313

SINE (Alu)

COX10-DT

Intron

2

chr17:16 095 665

104

Retroposon (SVA)

NCOR1

Intron

2

chr17:16 699 502

133

SINE (Alu)

CCDC144A

Intron

2

chr17:18 888 657

351

Retroposon (SVA)

PRPSAP2

Intron

1

chr17:19 627 853

800

Retroposon (SVA)

SLC47A1P2

Intron

2

chr17:20 038 316

2 413

Retroposon (SVA)

SPECC1

Intron

2

chr17:20 985 239

96

Retroposon (SVA)

LOC339260

Intron

1

chr17:21 292 724

121

SINE (Alu)

MAP2K3

Intron

1

chr17:28 456 137

1 157

Retroposon (SVA)

RSKR

Intron

1

chr17:28 604 067

97

Retroposon (SVA)

SPAG5-AS1

Intron

2

chr17:32 310 717

169

SINE (Alu)

RHBDL3

Intron

2

chr17:32 318 457

184

SINE (Alu)

RHBDL3

Intron

2

chr17:32 566 829

312

SINE (Alu)

MYO1D

Intron

2

chr17:42 106 634

107

SINE (Alu)

DHX58

Intron

2

chr17:42 973 206

273

Retroposon (SVA)

PTGES3L-AARSD1

Intron

2

chr17:43 128 193

125

LTR (ERV1)

NBR2

Intron

2

chr17:43 251 404

194

LTR (ERV1)

CCDC200

Intron

1

chr17:43 289 877

214

LTR (ERV1)

CCDC200

Intron

1

chr17:44 181 115

253

Retroposon (SVA)

ASB16-AS1

Intron

2

chr17:46 210 497

69

LINE (CR1)

KANSL1

Intron

2

chr17:47 325 026

266

SINE (Alu)

ITGB3

Intron

2

chr17:48 427 626

324

SINE (Alu)

SKAP1

Intron

2

chr17:51 331 423

330

SINE (Alu)

LINC02071

Intron

2

chr17:53 879 754

320

SINE (Alu)

LOC107985001

Intron

2

chr17:56 870 207

295

SINE (Alu)

TRIM25

Intron

2

chr17:57 848 853

310

SINE (Alu)

MRPS23

Intron

2

chr17:57 915 231

320

SINE (Alu)

LOC107985065

Intron

2

chr17:62 996 973

192

SINE (Alu)

TANC2

Intron

2

chr17:63 488 528

289

SINE (Alu)

ACE

Intron

2

chr17:67 550 440

300

SINE (Alu)

PITPNC1

Intron

2

chr17:69 879 207

314

SINE (Alu)

LINC01483

Intron

2

chr17:72 701 862

139

SINE (Alu)

SLC39A11

Intron

1

chr17:76 591 926

319

SINE (Alu)

SNHG16

Intron

2

chr17:77 284 126

87

SINE (Alu)

SEPTIN9

Intron

2

chr17:78 156 964

316

SINE (Alu)

C17orf99

Intron

2

chr17:80 113 807

314

SINE (Alu)

GAA

Intron

2

chr17:81 146 946

321

SINE (Alu)

AATK

Intron

2

chr17:82 631 585

304

SINE (Alu)

WDR45B

Intron

2

chr17:82 802 100

1 407

Retroposon (SVA)

TBCD

Intron

2

chr17:572 389

97

Retroposon (SVA)

VPS53

Intron

2

chr17:598 424

156

Retroposon (SVA)

VPS53

Intron

2

chr17:598 874

394

Retroposon (SVA)

VPS53

Intron

2

chr17:831 916

310

SINE (Alu)

NXN

Intron

2

chr18:1 235 778

322

SINE (Alu)

LOC105371953

Intron

2

chr18:1 955 406

63

LTR (ERV1)

LOC105371958

Intron

2

chr18:2 304 395

270

SINE (Alu)

LOC105371956

Intron

2

chr18:6 827 331

96

Retroposon (SVA)

ARHGAP28

Intron

1

chr18:10 911 126

317

SINE (Alu)

PIEZO2

Intron

2

chr18:23 577 365

155

LTR (ERV1)

NPC1

Promoter

2

chr18:23 577 365

155

LTR (ERV1)

NPC1

Intron

2

chr18:26 958 048

317

SINE (Alu)

AQP4-AS1

Intron

2

chr18:33 953 226

282

SINE (Alu)

NOL4

Intron

2

chr18:49 203 113

1 032

Retroposon (SVA)

DYM

Intron

1

chr18:53 460 168

319

SINE (Alu)

DCC

Intron

2

chr18:56 689 827

331

SINE (Alu)

WDR7

Intron

2

chr18:57 632 999

409

Retroposon (SVA)

ATP8B1-AS1

Intron

1

chr18:57 642 331

497

LTR (ERV1)

ATP8B1-AS1

Intron

1

chr18:57 642 411

507

LTR (ERV1)

ATP8B1-AS1

Intron

1

chr18:57 713 754

142

SINE (Alu)

LOC105372141

Intron

2

chr18:59 482 873

314

SINE (Alu)

CCBE1

Intron

2

chr18:65 820 032

317

SINE (Alu)

CDH7

Intron

2

chr18:68 731 922

315

SINE (Alu)

CCDC102B

Intron

2

chr18:68 905 255

332

SINE (Alu)

CCDC102B

Intron

2

chr18:69 492 815

314

SINE (Alu)

DOK6

Intron

2

chr18:76 241 968

323

SINE (Alu)

LOC105372209

Intron

2

chr18:76 851 079

311

SINE (Alu)

ZNF236

Promoter

2

chr18:76 851 079

311

SINE (Alu)

ZNF236

Intron

2

chr18:79 895 735

66

LINE (L1)

KCNG2

Intron

2

chr19:1 923 899

133

SINE (Alu)

SCAMP4

Intron

1

chr19:2 025 044

308

SINE (Alu)

LOC107985278

Intron

2

chr19:2 183 925

314

SINE (Alu)

DOT1L

Intron

2

chr19:2 383 641

308

SINE (Alu)

TMPRSS9

Intron

2

chr19:2 559 735

124

SINE (Alu)

GNG7

Intron

2

chr19:3 287 350

318

SINE (Alu)

CELF5

Intron

2

chr19:9 491 839

1 072

LTR (ERVL)

ZNF560

Intron

2

chr19:10 337 271

309

SINE (Alu)

ICAM3

Intron

2

chr19:12 621 718

128

Retroposon (SVA)

ZNF791

Intron

2

chr19:17 722 271

165

SINE (Alu)

MAP1S

Intron

2

chr19:20 149 557

148

Retroposon (SVA)

LOC105372310

Intron

2

chr19:20 437 085

77

LTR (ERVL)

LOC105372317

Intron

2

chr19:20 563 165

314

SINE (Alu)

LOC105372316

Intron

2

chr19:21 103 183

335

SINE (Alu)

ZNF714

Intron

2

chr19:22 634 026

312

SINE (Alu)

ZNF492

Promoter

2

chr19:22 636 885

307

SINE (Alu)

ZNF492

Intron

2

chr19:23 568 276

576

Retroposon (SVA)

LOC105372337

Intron

2

chr19:23 768 603

320

SINE (Alu)

RPSAP58

Intron

2

chr19:23 828 490

1 547

Retroposon (SVA)

RPSAP58

Intron

2

chr19:29 364 872

960

LTR (ERVK)

VSTM2B-DT

Intron

2

chr19:31 199 763

328

SINE (Alu)

LINC01791

Intron

2

chr19:36 480 620

311

SINE (Alu)

ZNF566

Intron

2

chr19:37 540 540

311

SINE (Alu)

ZNF793

Intron

2

chr19:38 541 453

135

SINE (Alu)

RYR1

Intron

2

chr19:39 905 477

311

SINE (Alu)

FCGBP

Intron

2

chr19:46 509 015

312

SINE (Alu)

PPP5D1P

Intron

2

chr19:53 194 287

202

SINE (Alu)

ZNF665

Promoter

2

chr19:53 794 570

313

SINE (Alu)

NLRP12

Intron

2

chr19:54 753 609

315

SINE (Alu)

KIR2DL1

Intron

1

chr19:54 999 012

49

Retroposon (SVA)

NLRP2

Intron

1

chr20:1 150 047

308

SINE (Alu)

PSMF1

Intron

2

chr20:8 689 955

303

SINE (Alu)

PLCB1

Intron

2

chr20:8 835 843

301

SINE (Alu)

PLCB1

Intron

2

chr20:9 624 548

318

SINE (Alu)

PAK5

Intron

2

chr20:9 641 462

118

LTR (ERV1)

PAK5

Intron

2

chr20:9 660 318

287

SINE (Alu)

PAK5

Intron

2

chr20:11 300 930

125

LINE (L1)

LOC339593

Intron

2

chr20:15 125 949

290

SINE (Alu)

MACROD2

Intron

2

chr20:18 689 891

175

SINE (Alu)

DTD1

Intron

2

chr20:25 562 196

445

Retroposon (SVA)

NINL

Intron

2

chr20:26 210 320

323

SINE (Alu)

MIR663AHG

Promoter

2

chr20:26 210 320

323

SINE (Alu)

MIR663AHG

Intron

2

chr20:31 470 408

126

Retroposon (SVA)

DEFB124

Intron

2

chr20:34 205 638

321

SINE (Alu)

ASIP

Intron

2

chr20:35 041 057

96

LTR (ERVL)

TRPC4AP

Intron

1

chr20:35 564 371

148

SINE (Alu)

FER1L4

Intron

2

chr20:47 525 869

146

Retroposon (SVA)

NCOA3

Intron

2

chr20:54 021 396

314

SINE (Alu)

BCAS1

Intron

2

chr20:59 138 375

308

SINE (Alu)

ZNF831

Intron

2

chr20:60 439 006

74

LINE (L1)

MIR646HG

Intron

2

chr20:60 600 158

76

LTR (ERVL)

MIR646HG

Intron

2

chr21:10 508 068

56

LINE (L1)

BAGE2

Intron

2

chr21:14 980 612

323

SINE (Alu)

LINC02246

Intron

2

chr21:15 556 506

386

LINE (L1)

LOC101927745

Intron

2

chr21:16 398 231

95

LTR (ERV1)

MIR99AHG

Intron

1

chr21:18 144 980

3 394

LINE (L1)

CHODL

Intron

2

chr21:21 411 087

314

LTR (ERVL)

NCAM2

Intron

2

chr21:24 981 910

322

SINE (Alu)

LINC01692

Intron

2

chr21:32 026 204

319

SINE (Alu)

HUNK

Intron

2

chr21:32 428 505

302

SINE (Alu)

EVA1C

Intron

2

chr21:32 433 901

139

SINE (Alu)

EVA1C

Intron

2

chr21:32 482 933

67

SINE (Alu)

EVA1C

Intron

2

chr21:35 865 629

332

SINE (Alu)

LOC101928269

Intron

2

chr21:37 632 243

321

SINE (Alu)

KCNJ6

Intron

2

chr21:37 685 531

316

SINE (Alu)

KCNJ6

Intron

2

chr21:45 622 444

326

SINE (Alu)

LOC107985485

Intron

2

chr22:11 860 398

309

SINE (Alu)

LOC107984037

Intron

2

chr22:17 224 399

332

SINE (Alu)

ADA2

Intron

2

chr22:17 567 654

357

SINE (Alu)

SLC25A18

Intron

2

chr22:18 106 942

188

LTR (ERVL)

TUBA8

Intron

1

chr22:18 201 956

74

SINE (Alu)

FAM230D

Intron

1

chr22:19 373 921

124

SINE (Alu)

HIRA

Intron

2

chr22:22 644 845

315

SINE (Alu)

POM121L1P

Promoter

2

chr22:22 644 845

315

SINE (Alu)

GGTLC2

Intron

2

chr22:24 000 536

323

SINE (Alu)

GSTT4

Intron

2

chr22:26 772 985

453

Retroposon (SVA)

MIATNB

Intron

1

chr22:26 773 145

905

Retroposon (SVA)

MIATNB

Intron

2

chr22:26 773 147

125

Retroposon (SVA)

MIATNB

Intron

1

chr22:26 773 373

452

Retroposon (SVA)

MIATNB

Intron

1

chr22:28 380 048

320

SINE (Alu)

TTC28

Intron

2

chr22:30 597 428

159

LTR (ERV1)

PES1

Intron

2

chr22:32 682 040

149

LINE (L2)

SYN3

Intron

2

chr22:33 132 511

316

SINE (Alu)

LINC01640

Intron

2

chr22:34 034 609

325

SINE (Alu)

LINC01643

Intron

2

chr22:40 199 779

320

SINE (Alu)

TNRC6B

Intron

2

chr22:40 501 145

128

Retroposon (SVA)

MRTFA

Intron

2

chr22:40 501 490

148

Retroposon (SVA)

MRTFA

Intron

1

chr22:40 537 218

96

Retroposon (SVA)

MRTFA

Intron

1

chr22:40 537 628

776

Retroposon (SVA)

MRTFA

Intron

1

chr22:41 314 923

312

SINE (Alu)

ZC3H7B

Intron

2

chr22:42 112 847

117

LTR (ERV1)

NDUFA6-DT

Intron

1

chr22:42 818 815

313

SINE (Alu)

ARFGAP3

Intron

2

chr22:43 928 708

1 148

LINE (L1)

PNPLA3

Intron

2

chr22:45 166 717

124

SINE (Alu)

NUP50

Intron

2

chr22:49 879 740

216

SINE (Alu)

ZBED4

Intron

2

chrX:1 304 189

333

SINE (Alu)

CSF2RA

Intron

2

chrX:1 496 843

135

SINE (Alu)

P2RY8

Intron

2

chrX:6 197 435

114

SINE (Alu)

NLGN4X

Intron

2

chrX:16 964 930

124

Retroposon (SVA)

REPS2

Intron

2

chrX:19 074 340

53

SINE (Alu)

ADGRG2

Intron

2

chrX:24 709 079

128

Retroposon (SVA)

POLA1

Intron

2

chrX:29 333 929

49

Retroposon (SVA)

IL1RAPL1

Intron

2

chrX:33 284 732

306

SINE (Alu)

DMD

Intron

2

chrX:34 249 205

394

LINE (L1)

LOC105373153

Intron

2

chrX:45 040 273

164

Retroposon (SVA)

KDM6A

Intron

2

chrX:53 967 164

125

Retroposon (SVA)

PHF8

Intron

2

chrX:65 457 302

346

Retroposon (SVA)

ZC3H12B

Intron

2

chrX:70 350 008

115

Retroposon (SVA)

KIF4A

Intron

2

chrX:72 681 503

124

Retroposon (SVA)

PHKA1

Intron

2

chrX:72 681 897

226

Retroposon (SVA)

PHKA1

Intron

2

chrX:80 396 883

834

Retroposon (SVA)

TENT5D

Intron

1

chrX:84 080 389

1 359

LINE (L1)

RPS6KA6

Intron

2

chrX:85 135 734

326

SINE (Alu)

SATL1

Intron

2

chrX:92 170 920

134

SINE (Alu)

PCDH11X

Intron

2

chrX:97 069 995

319

SINE (Alu)

DIAPH2

Intron

2

chrX:100 972 832

746

Retroposon (SVA)

ARL13A

Intron

2

chrX:107 501 516

133

SINE (Alu)

FRMPD3

Intron

2

chrX:112 314 520

6 052

LINE (L1)

RTL4

Intron

2

chrX:122 435 457

327

SINE (Alu)

LOC101928359

Intron

2

chrX:124 128 744

223

Retroposon (SVA)

STAG2

Intron

1

chrX:131 467 165

76

LINE (L1)

IGSF1

Intron

2

chrX:137 034 007

346

SINE (Alu)

GPR101

Promoter

2

chrX:147 992 468

50

Retroposon (SVA)

FMR1NB

Intron

1

chrX:147 992 492

800

Retroposon (SVA)

FMR1NB

Intron

1

chrX:656 846

236

SINE (Alu)

SHOX

Intron

1

2.2 Class II Elements

2.2.1 Distribution

A) Unique class II TE insertions occurrences on the genome. B) Gene annotations of class II TE insertions on the genome. A single TE may be annotated more than once.

  1. Unique class II TE insertions occurrences on the genome. B) Gene annotations of class II TE insertions on the genome. A single TE may be annotated more than once.

2.2.2 Class II TEs on gene sequences

Click to show table with 4 rows.

Position

Length

Type

Gene

Annotation

Occurrences

chr3:197 847 677

57

DNA (TcMar)

LRCH3

Promoter

2

chr3:197 847 677

57

DNA (TcMar)

LRCH3

Intron

2

chr11:13 001 659

81

DNA (hAT)

RASSF10-DT

Intron

2

chr11:41 072 278

87

DNA (TcMar)

LRRC4C

Intron

2

3 TE Deletions

It is common to find deletions whose coordinates match those of a TE sequence in the reference genome. This section presents them.

  • 1 655 TE deletions have been found, adding up to 3 220 occurrences among cases.
  • These deletions have a mean prevalence per sample of 1.9 ± 0.23 (median of 2).
  • The deletion length is in the range of 303-332 bp for 50% of them (Q2-Q3, both included), and the maximum length found was 8 486, for a deleted ERVK sequence.

3.1 Allele frequency

  • The mean AF for deletions is 0.8 ± 0.25 (median of 1).
  • With 904 (904 of which has passed the stringent filtering) deletions appearing in a homozygous state in all patients (Fig. 7). On the other hand, 40 deletions were genotyped as 0/0 on all cases, and have not been included in the rest of this section.
Allele frequency is shown for TE deletions for each chromosome. Each dot marks a different deletion.

Allele frequency is shown for TE deletions for each chromosome. Each dot marks a different deletion.

4 Enrichment analysis

This section shows the result of enrichment analysis on the genes affected with TE insertions.

4.1 Gene Ontology

4.1.0.1 Annotation group: MF (Molecular Function)

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The category with lowest p value is Pyrin domain binding (1.43467e-10), and the highest (among the lowest 10) is taste receptor activity (0.01642528). The ratio is 114488184.39, i.e., they differ in 8 orders of magnitude.

Click to show/hide table with 100 rows for categories with the lowest p value.

ID

Description

GeneRatio

BgRatio

pvalue

p.adjust

qvalue

Count

GeneRatioCalc

GO:0032090

Pyrin domain binding

10/871

11/20758

1.704e-13

1.435e-10

1.309e-10

10

0.01148

GO:0005085

guanyl-nucleotide exchange factor activity

32/871

245/20758

1.257e-08

5.292e-06

4.83e-06

32

0.03674

GO:0005096

GTPase activator activity

35/871

304/20758

6.825e-08

1.916e-05

1.748e-05

35

0.04018

GO:0046703

natural killer cell lectin-like receptor binding

8/871

27/20758

1.014e-05

0.002135

0.001948

8

0.009185

GO:0005216

ion channel activity

40/871

480/20758

3.142e-05

0.005292

0.004829

40

0.04592

GO:0033038

bitter taste receptor activity

9/871

44/20758

7.301e-05

0.01025

0.00935

9

0.01033

GO:0022836

gated channel activity

32/871

372/20758

0.0001057

0.01173

0.01071

32

0.03674

GO:0005546

phosphatidylinositol-4,5-bisphosphate binding

13/871

92/20758

0.0001188

0.01173

0.01071

13

0.01493

GO:1902936

phosphatidylinositol bisphosphate binding

15/871

118/20758

0.0001254

0.01173

0.01071

15

0.01722

GO:0008527

taste receptor activity

9/871

50/20758

0.000206

0.01643

0.01499

9

0.01033

GO:0035091

phosphatidylinositol binding

26/871

288/20758

0.0002146

0.01643

0.01499

26

0.02985

GO:0030165

PDZ domain binding

12/871

89/20758

0.0003357

0.02356

0.0215

12

0.01378

GO:0140327

flippase activity

5/871

17/20758

0.0005218

0.0338

0.03084

5

0.005741

GO:0042578

phosphoric ester hydrolase activity

31/871

396/20758

0.0006866

0.0413

0.03769

31

0.03559

GO:0003779

actin binding

35/871

471/20758

0.0008205

0.04605

0.04203

35

0.04018

GO:0004115

3',5'-cyclic-AMP phosphodiesterase activity

5/871

19/20758

0.0009144

0.04812

0.04392

5

0.005741

GO:0005253

anion channel activity

12/871

101/20758

0.001067

0.05254

0.04795

12

0.01378

GO:0050811

GABA receptor binding

5/871

20/20758

0.001177

0.05254

0.04795

5

0.005741

GO:0045296

cadherin binding

28/871

357/20758

0.001185

0.05254

0.04795

28

0.03215

GO:0005516

calmodulin binding

19/871

210/20758

0.001411

0.05712

0.05213

19

0.02181

GO:0005001

transmembrane receptor protein tyrosine phosphatase activity

5/871

21/20758

0.001492

0.05712

0.05213

5

0.005741

GO:0019198

transmembrane receptor protein phosphatase activity

5/871

21/20758

0.001492

0.05712

0.05213

5

0.005741

GO:0008081

phosphoric diester hydrolase activity

11/871

95/20758

0.002093

0.07406

0.06759

11

0.01263

GO:0070679

inositol 1,4,5 trisphosphate binding

4/871

14/20758

0.002199

0.07406

0.06759

4

0.004592

GO:0140333

glycerophospholipid flippase activity

4/871

14/20758

0.002199

0.07406

0.06759

4

0.004592

GO:0008093

cytoskeletal anchor activity

5/871

23/20758

0.002302

0.07455

0.06804

5

0.005741

GO:0005262

calcium channel activity

13/871

126/20758

0.002467

0.07693

0.07021

13

0.01493

GO:1901981

phosphatidylinositol phosphate binding

17/871

191/20758

0.002913

0.08759

0.07994

17

0.01952

GO:0140303

intramembrane lipid transporter activity

7/871

47/20758

0.003247

0.09428

0.08604

7

0.008037

GO:0022839

ion gated channel activity

7/871

48/20758

0.003666

0.1023

0.09333

7

0.008037

GO:0005254

chloride channel activity

10/871

88/20758

0.003765

0.1023

0.09333

10

0.01148

GO:0004114

3',5'-cyclic-nucleotide phosphodiesterase activity

5/871

26/20758

0.004056

0.1035

0.09444

5

0.005741

GO:0008266

poly(U) RNA binding

5/871

26/20758

0.004056

0.1035

0.09444

5

0.005741

GO:0046873

metal ion transmembrane transporter activity

32/871

466/20758

0.00454

0.1124

0.1026

32

0.03674

GO:0004674

protein serine/threonine kinase activity

32/871

470/20758

0.005143

0.1237

0.1129

32

0.03674

GO:0004112

cyclic-nucleotide phosphodiesterase activity

5/871

28/20758

0.005655

0.125

0.1141

5

0.005741

GO:0005547

phosphatidylinositol-3,4,5-trisphosphate binding

6/871

40/20758

0.00608

0.125

0.1141

6

0.006889

GO:0005543

phospholipid binding

33/871

495/20758

0.006193

0.125

0.1141

33

0.03789

GO:0004435

phosphatidylinositol phospholipase C activity

5/871

29/20758

0.006601

0.125

0.1141

5

0.005741

GO:0008187

poly-pyrimidine tract binding

5/871

29/20758

0.006601

0.125

0.1141

5

0.005741

GO:0045499

chemorepellent activity

5/871

29/20758

0.006601

0.125

0.1141

5

0.005741

GO:0140326

ATPase-coupled intramembrane lipid transporter activity

5/871

29/20758

0.006601

0.125

0.1141

5

0.005741

GO:0015103

inorganic anion transmembrane transporter activity

15/871

174/20758

0.006674

0.125

0.1141

15

0.01722

GO:0005548

phospholipid transporter activity

8/871

67/20758

0.006803

0.125

0.1141

8

0.009185

GO:0008509

anion transmembrane transporter activity

24/871

331/20758

0.006822

0.125

0.1141

24

0.02755

GO:0015085

calcium ion transmembrane transporter activity

13/871

142/20758

0.006842

0.125

0.1141

13

0.01493

GO:0004791

thioredoxin-disulfide reductase activity

3/871

10/20758

0.007079

0.125

0.1141

3

0.003444

GO:0004890

GABA-A receptor activity

4/871

19/20758

0.007206

0.125

0.1141

4

0.004592

GO:0031267

small GTPase binding

22/871

297/20758

0.007347

0.125

0.1141

22

0.02526

GO:0004725

protein tyrosine phosphatase activity

11/871

112/20758

0.007423

0.125

0.1141

11

0.01263

GO:0005261

cation channel activity

25/871

360/20758

0.009846

0.1574

0.1437

25

0.0287

GO:0098960

postsynaptic neurotransmitter receptor activity

9/871

86/20758

0.009932

0.1574

0.1437

9

0.01033

GO:0004629

phospholipase C activity

5/871

32/20758

0.0101

0.1574

0.1437

5

0.005741

GO:0070566

adenylyltransferase activity

5/871

32/20758

0.0101

0.1574

0.1437

5

0.005741

GO:0005451

monovalent cation:proton antiporter activity

5/871

33/20758

0.0115

0.1645

0.1502

5

0.005741

GO:0015299

solute:proton antiporter activity

5/871

33/20758

0.0115

0.1645

0.1502

5

0.005741

GO:0051020

GTPase binding

23/871

329/20758

0.01201

0.1645

0.1502

23

0.02641

GO:0005245

voltage-gated calcium channel activity

6/871

46/20758

0.01201

0.1645

0.1502

6

0.006889

GO:0001851

complement component C3b binding

3/871

12/20758

0.01219

0.1645

0.1502

3

0.003444

GO:0004090

carbonyl reductase (NADPH) activity

3/871

12/20758

0.01219

0.1645

0.1502

3

0.003444

GO:0005229

intracellular calcium activated chloride channel activity

4/871

22/20758

0.01231

0.1645

0.1502

4

0.004592

GO:0031681

G-protein beta-subunit binding

4/871

22/20758

0.01231

0.1645

0.1502

4

0.004592

GO:0061778

intracellular chloride channel activity

4/871

22/20758

0.01231

0.1645

0.1502

4

0.004592

GO:0017124

SH3 domain binding

12/871

139/20758

0.01418

0.1865

0.1702

12

0.01378

GO:0022843

voltage-gated cation channel activity

13/871

156/20758

0.01441

0.1867

0.1704

13

0.01493

GO:1904315

transmitter-gated ion channel activity involved in regulation of postsynaptic membrane potential

7/871

62/20758

0.01481

0.1889

0.1724

7

0.008037

GO:0022851

GABA-gated chloride ion channel activity

3/871

13/20758

0.01536

0.1902

0.1736

3

0.003444

GO:0047134

protein-disulfide reductase (NAD(P)) activity

3/871

13/20758

0.01536

0.1902

0.1736

3

0.003444

GO:0043178

alcohol binding

9/871

93/20758

0.01607

0.1961

0.179

9

0.01033

GO:0030215

semaphorin receptor binding

4/871

24/20758

0.01674

0.2014

0.1838

4

0.004592

GO:0098631

cell adhesion mediator activity

7/871

64/20758

0.01742

0.2066

0.1885

7

0.008037

GO:0005244

voltage-gated ion channel activity

16/871

213/20758

0.01796

0.2072

0.1891

16

0.01837

GO:0022832

voltage-gated channel activity

16/871

213/20758

0.01796

0.2072

0.1891

16

0.01837

GO:0005161

platelet-derived growth factor receptor binding

3/871

14/20758

0.01895

0.2127

0.1941

3

0.003444

GO:0031404

chloride ion binding

3/871

14/20758

0.01895

0.2127

0.1941

3

0.003444

GO:0106310

protein serine kinase activity

25/871

383/20758

0.01988

0.2202

0.201

25

0.0287

GO:0032395

MHC class II receptor activity

7/871

67/20758

0.02191

0.2358

0.2152

7

0.008037

GO:0016779

nucleotidyltransferase activity

11/871

131/20758

0.0221

0.2358

0.2152

11

0.01263

GO:0015079

potassium ion transmembrane transporter activity

13/871

166/20758

0.02291

0.2358

0.2152

13

0.01493

GO:0016668

oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor

3/871

15/20758

0.02296

0.2358

0.2152

3

0.003444

GO:0031005

filamin binding

3/871

15/20758

0.02296

0.2358

0.2152

3

0.003444

GO:0034236

protein kinase A catalytic subunit binding

3/871

15/20758

0.02296

0.2358

0.2152

3

0.003444

GO:0098632

cell-cell adhesion mediator activity

6/871

54/20758

0.02502

0.2423

0.2211

6

0.006889

GO:0030507

spectrin binding

4/871

27/20758

0.02505

0.2423

0.2211

4

0.004592

GO:0000287

magnesium ion binding

17/871

240/20758

0.02506

0.2423

0.2211

17

0.01952

GO:0022824

transmitter-gated ion channel activity

7/871

69/20758

0.02532

0.2423

0.2211

7

0.008037

GO:0022835

transmitter-gated channel activity

7/871

69/20758

0.02532

0.2423

0.2211

7

0.008037

GO:0097110

scaffold protein binding

7/871

69/20758

0.02532

0.2423

0.2211

7

0.008037

GO:0015386

potassium:proton antiporter activity

3/871

16/20758

0.0274

0.2563

0.2339

3

0.003444

GO:0140328

floppase activity

3/871

16/20758

0.0274

0.2563

0.2339

3

0.003444

GO:0015108

chloride transmembrane transporter activity

10/871

119/20758

0.02815

0.2584

0.2358

10

0.01148

GO:0016917

GABA receptor activity

4/871

28/20758

0.02828

0.2584

0.2358

4

0.004592

GO:0016791

phosphatase activity

20/871

300/20758

0.02854

0.2584

0.2358

20

0.02296

GO:0099529

neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential

7/871

71/20758

0.02908

0.2601

0.2373

7

0.008037

GO:0005544

calcium-dependent phospholipid binding

6/871

56/20758

0.02934

0.2601

0.2373

6

0.006889

GO:0019199

transmembrane receptor protein kinase activity

8/871

88/20758

0.03135

0.275

0.2509

8

0.009185

GO:0046875

ephrin receptor binding

4/871

29/20758

0.03175

0.2756

0.2515

4

0.004592

GO:0015385

sodium:proton antiporter activity

3/871

17/20758

0.03226

0.2771

0.2529

3

0.003444

GO:0004721

phosphoprotein phosphatase activity

14/871

194/20758

0.03451

0.2935

0.2679

14

0.01607

GO:0070717

poly-purine tract binding

4/871

30/20758

0.03546

0.2986

0.2725

4

0.004592

[1] “”


These plots show connections among categories:

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted _p_ value.

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted p value.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

4.1.0.2 Annotation group: BP (Biological Process)

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The category with lowest p value is natural killer cell inhibitory signaling pathway (9.923283e-42), and the highest (among the lowest 10) is negative regulation of defense response to virus (0.003825161). The ratio is 3.854733e+38, i.e., they differ in 19 orders of magnitude.

Click to show/hide table with 100 rows for categories with the lowest p value.

ID

Description

GeneRatio

BgRatio

pvalue

p.adjust

qvalue

Count

GeneRatioCalc

GO:0002769

natural killer cell inhibitory signaling pathway

34/864

36/21069

2.132e-45

9.923e-42

9.624e-42

34

0.03935

GO:0002767

immune response-inhibiting cell surface receptor signaling pathway

34/864

61/21069

2.011e-31

4.68e-28

4.539e-28

34

0.03935

GO:0002765

immune response-inhibiting signal transduction

34/864

63/21069

8.946e-31

1.388e-27

1.346e-27

34

0.03935

GO:0002768

immune response-regulating cell surface receptor signaling pathway

63/864

470/21069

9.704e-17

1.129e-13

1.095e-13

63

0.07292

GO:0050689

negative regulation of defense response to virus by host

8/864

10/21069

3.241e-10

3.017e-07

2.926e-07

8

0.009259

GO:0051056

regulation of small GTPase mediated signal transduction

41/864

343/21069

8.768e-10

6.801e-07

6.596e-07

41

0.04745

GO:0010804

negative regulation of tumor necrosis factor-mediated signaling pathway

11/864

41/21069

5.288e-07

0.0003516

0.000341

11

0.01273

GO:0010975

regulation of neuron projection development

43/864

468/21069

7.499e-07

0.0004363

0.0004231

43

0.04977

GO:0007158

neuron cell-cell adhesion

7/864

17/21069

2.581e-06

0.001335

0.001294

7

0.008102

GO:0050687

negative regulation of defense response to virus

9/864

35/21069

8.489e-06

0.003825

0.00371

9

0.01042

GO:0032088

negative regulation of NF-kappaB transcription factor activity

17/864

121/21069

9.041e-06

0.003825

0.00371

17

0.01968

GO:0019835

cytolysis

9/864

37/21069

1.389e-05

0.005389

0.005226

9

0.01042

GO:0050885

neuromuscular process controlling balance

10/864

54/21069

5.927e-05

0.02122

0.02058

10

0.01157

GO:0007605

sensory perception of sound

19/864

169/21069

6.784e-05

0.02191

0.02125

19

0.02199

GO:0097105

presynaptic membrane assembly

5/864

12/21069

7.136e-05

0.02191

0.02125

5

0.005787

GO:0010803

regulation of tumor necrosis factor-mediated signaling pathway

12/864

78/21069

7.533e-05

0.02191

0.02125

12

0.01389

GO:0097090

presynaptic membrane organization

5/864

13/21069

0.000112

0.02955

0.02866

5

0.005787

GO:0034329

cell junction assembly

37/864

468/21069

0.0001143

0.02955

0.02866

37

0.04282

GO:0050919

negative chemotaxis

9/864

49/21069

0.0001477

0.03617

0.03508

9

0.01042

GO:0050954

sensory perception of mechanical stimulus

20/864

197/21069

0.000182

0.04235

0.04108

20

0.02315

GO:0031589

cell-substrate adhesion

33/864

411/21069

0.0001981

0.0439

0.04258

33

0.03819

GO:0046629

gamma-delta T cell activation

8/864

41/21069

0.0002219

0.04695

0.04553

8

0.009259

GO:0050691

regulation of defense response to virus by host

9/864

55/21069

0.0003669

0.07424

0.072

9

0.01042

GO:0031346

positive regulation of cell projection organization

30/864

375/21069

0.0004032

0.07819

0.07583

30

0.03472

GO:0072523

purine-containing compound catabolic process

9/864

56/21069

0.0004215

0.07846

0.07609

9

0.01042

GO:1900122

positive regulation of receptor binding

4/864

10/21069

0.0004837

0.08343

0.08091

4

0.00463

GO:0051932

synaptic transmission, GABAergic

10/864

69/21069

0.000484

0.08343

0.08091

10

0.01157

GO:0071709

membrane assembly

10/864

71/21069

0.0006106

0.1015

0.09843

10

0.01157

GO:0009582

detection of abiotic stimulus

16/864

156/21069

0.0006952

0.1116

0.1082

16

0.01852

GO:0006198

cAMP catabolic process

4/864

11/21069

0.0007355

0.1141

0.1107

4

0.00463

GO:0001895

retina homeostasis

11/864

87/21069

0.0008432

0.1206

0.1169

11

0.01273

GO:0007269

neurotransmitter secretion

16/864

159/21069

0.0008549

0.1206

0.1169

16

0.01852

GO:0099643

signal release from synapse

16/864

159/21069

0.0008549

0.1206

0.1169

16

0.01852

GO:0001580

detection of chemical stimulus involved in sensory perception of bitter taste

9/864

62/21069

0.0009068

0.1216

0.118

9

0.01042

GO:0007160

cell-matrix adhesion

23/864

273/21069

0.0009212

0.1216

0.118

23

0.02662

GO:0044091

membrane biogenesis

10/864

75/21069

0.0009463

0.1216

0.118

10

0.01157

GO:0007626

locomotory behavior

19/864

208/21069

0.0009669

0.1216

0.118

19

0.02199

GO:0009261

ribonucleotide catabolic process

8/864

51/21069

0.001031

0.1262

0.1224

8

0.009259

GO:0032228

regulation of synaptic transmission, GABAergic

7/864

40/21069

0.001086

0.1296

0.1257

7

0.008102

GO:0007034

vacuolar transport

17/864

180/21069

0.001217

0.1402

0.136

17

0.01968

GO:0001960

negative regulation of cytokine-mediated signaling pathway

12/864

105/21069

0.001235

0.1402

0.136

12

0.01389

GO:0030032

lamellipodium assembly

10/864

78/21069

0.001287

0.1426

0.1383

10

0.01157

GO:0099054

presynapse assembly

8/864

53/21069

0.001335

0.1445

0.1401

8

0.009259

GO:0048013

ephrin receptor signaling pathway

8/864

54/21069

0.001512

0.1585

0.1538

8

0.009259

GO:0050770

regulation of axonogenesis

16/864

168/21069

0.001533

0.1585

0.1538

16

0.01852

GO:0009266

response to temperature stimulus

19/864

217/21069

0.001591

0.1609

0.156

19

0.02199

GO:0015698

inorganic anion transport

18/864

201/21069

0.001624

0.1609

0.156

18

0.02083

GO:0046578

regulation of Ras protein signal transduction

19/864

218/21069

0.001678

0.1612

0.1563

19

0.02199

GO:1902547

regulation of cellular response to vascular endothelial growth factor stimulus

6/864

32/21069

0.001697

0.1612

0.1563

6

0.006944

GO:0050912

detection of chemical stimulus involved in sensory perception of taste

9/864

68/21069

0.001771

0.1616

0.1567

9

0.01042

GO:0050913

sensory perception of bitter taste

9/864

68/21069

0.001771

0.1616

0.1567

9

0.01042

GO:0060761

negative regulation of response to cytokine stimulus

12/864

110/21069

0.001849

0.1655

0.1605

12

0.01389

GO:0099172

presynapse organization

8/864

56/21069

0.001921

0.1687

0.1636

8

0.009259

GO:1905515

non-motile cilium assembly

9/864

69/21069

0.001964

0.1693

0.1642

9

0.01042

GO:0050905

neuromuscular process

16/864

173/21069

0.002074

0.1735

0.1682

16

0.01852

GO:0010810

regulation of cell-substrate adhesion

20/864

239/21069

0.002087

0.1735

0.1682

20

0.02315

GO:0009154

purine ribonucleotide catabolic process

7/864

45/21069

0.002214

0.1803

0.1749

7

0.008102

GO:0032731

positive regulation of interleukin-1 beta production

11/864

98/21069

0.002247

0.1803

0.1749

11

0.01273

GO:0007041

lysosomal transport

14/864

144/21069

0.002428

0.1909

0.1851

14

0.0162

GO:0061640

cytoskeleton-dependent cytokinesis

12/864

114/21069

0.002504

0.1909

0.1851

12

0.01389

GO:0045494

photoreceptor cell maintenance

7/864

46/21069

0.002521

0.1909

0.1851

7

0.008102

GO:0060117

auditory receptor cell development

5/864

24/21069

0.002543

0.1909

0.1851

5

0.005787

GO:0009214

cyclic nucleotide catabolic process

4/864

15/21069

0.002668

0.1913

0.1856

4

0.00463

GO:0097120

receptor localization to synapse

8/864

59/21069

0.002693

0.1913

0.1856

8

0.009259

GO:0007416

synapse assembly

17/864

194/21069

0.002712

0.1913

0.1856

17

0.01968

GO:0007214

gamma-aminobutyric acid signaling pathway

6/864

35/21069

0.002739

0.1913

0.1856

6

0.006944

GO:0016358

dendrite development

21/864

262/21069

0.002755

0.1913

0.1856

21

0.02431

GO:0060119

inner ear receptor cell development

7/864

47/21069

0.002859

0.1957

0.1898

7

0.008102

GO:0043280

positive regulation of cysteine-type endopeptidase activity involved in apoptotic process

14/864

147/21069

0.002937

0.1981

0.1921

14

0.0162

GO:0120032

regulation of plasma membrane bounded cell projection assembly

18/864

213/21069

0.003063

0.1987

0.1927

18

0.02083

GO:0003148

outflow tract septum morphogenesis

5/864

25/21069

0.003072

0.1987

0.1927

5

0.005787

GO:0006836

neurotransmitter transport

19/864

230/21069

0.003074

0.1987

0.1927

19

0.02199

GO:0048841

regulation of axon extension involved in axon guidance

6/864

36/21069

0.003175

0.2024

0.1963

6

0.006944

GO:0060491

regulation of cell projection assembly

18/864

215/21069

0.003383

0.2102

0.2038

18

0.02083

GO:0097091

synaptic vesicle clustering

4/864

16/21069

0.003443

0.2102

0.2038

4

0.00463

GO:0007409

axonogenesis

32/864

468/21069

0.003454

0.2102

0.2038

32

0.03704

GO:0050688

regulation of defense response to virus

10/864

89/21069

0.003477

0.2102

0.2038

10

0.01157

GO:0048813

dendrite morphogenesis

14/864

150/21069

0.00353

0.2106

0.2043

14

0.0162

GO:0046058

cAMP metabolic process

5/864

26/21069

0.003677

0.2161

0.2095

5

0.005787

GO:1901888

regulation of cell junction assembly

19/864

234/21069

0.003714

0.2161

0.2095

19

0.02199

GO:0010634

positive regulation of epithelial cell migration

16/864

184/21069

0.003841

0.2207

0.214

16

0.01852

GO:0098659

inorganic cation import across plasma membrane

13/864

136/21069

0.003949

0.2214

0.2147

13

0.01505

GO:0099587

inorganic ion import across plasma membrane

13/864

136/21069

0.003949

0.2214

0.2147

13

0.01505

GO:0006195

purine nucleotide catabolic process

7/864

50/21069

0.004084

0.2263

0.2195

7

0.008102

GO:0051057

positive regulation of small GTPase mediated signal transduction

9/864

77/21069

0.004185

0.2282

0.2213

9

0.01042

GO:0009581

detection of external stimulus

14/864

153/21069

0.004217

0.2282

0.2213

14

0.0162

GO:0043433

negative regulation of DNA-binding transcription factor activity

18/864

220/21069

0.004308

0.2305

0.2235

18

0.02083

GO:0042278

purine nucleoside metabolic process

5/864

27/21069

0.004363

0.2307

0.2238

5

0.005787

GO:0009166

nucleotide catabolic process

9/864

78/21069

0.004563

0.2386

0.2314

9

0.01042

GO:0001952

regulation of cell-matrix adhesion

13/864

139/21069

0.004753

0.2431

0.2358

13

0.01505

GO:0030048

actin filament-based movement

13/864

139/21069

0.004753

0.2431

0.2358

13

0.01505

GO:0090303

positive regulation of wound healing

8/864

65/21069

0.004945

0.2439

0.2365

8

0.009259

GO:0030705

cytoskeleton-dependent intracellular transport

18/864

223/21069

0.004957

0.2439

0.2365

18

0.02083

GO:0086003

cardiac muscle cell contraction

9/864

79/21069

0.004967

0.2439

0.2365

9

0.01042

GO:0031503

protein-containing complex localization

16/864

189/21069

0.004978

0.2439

0.2365

16

0.01852

GO:0002253

activation of immune response

33/864

500/21069

0.005143

0.2493

0.2418

33

0.03819

GO:0050910

detection of mechanical stimulus involved in sensory perception of sound

4/864

18/21069

0.005424

0.256

0.2483

4

0.00463

GO:0048846

axon extension involved in axon guidance

6/864

40/21069

0.005447

0.256

0.2483

6

0.006944

GO:1902284

neuron projection extension involved in neuron projection guidance

6/864

40/21069

0.005447

0.256

0.2483

6

0.006944

GO:0002429

immune response-activating cell surface receptor signaling pathway

27/864

390/21069

0.005846

0.2694

0.2613

27

0.03125

[1] “”


These plots show connections among categories:

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted _p_ value.

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted p value.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

4.1.0.3 Annotation group: CC (Cellular Component)

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The category with lowest p value is glutamatergic synapse (0.0009468179), and the highest (among the lowest 10) is filopodium (0.01251404). The ratio is 13.21694, i.e., they differ in 1 orders of magnitude.

Click to show/hide table with 100 rows for categories with the lowest p value.

ID

Description

GeneRatio

BgRatio

pvalue

p.adjust

qvalue

Count

GeneRatioCalc

GO:0098978

glutamatergic synapse

34/906

354/22283

3.462e-06

0.0009468

0.0008154

34

0.03753

GO:0097060

synaptic membrane

37/906

408/22283

4.974e-06

0.0009468

0.0008154

37

0.04084

GO:0098858

actin-based cell projection

27/906

253/22283

5.063e-06

0.0009468

0.0008154

27

0.0298

GO:0045211

postsynaptic membrane

29/906

296/22283

1.22e-05

0.001711

0.001474

29

0.03201

GO:0005938

cell cortex

30/906

326/22283

2.903e-05

0.003257

0.002805

30

0.03311

GO:1990351

transporter complex

36/906

447/22283

8.301e-05

0.007396

0.00637

36

0.03974

GO:0042383

sarcolemma

17/906

147/22283

0.000103

0.007396

0.00637

17

0.01876

GO:0016010

dystrophin-associated glycoprotein complex

6/906

20/22283

0.0001055

0.007396

0.00637

6

0.006623

GO:1990531

phospholipid-translocating ATPase complex

5/906

14/22283

0.0001619

0.01009

0.00869

5

0.005519

GO:0030175

filopodium

15/906

128/22283

0.0002231

0.01251

0.01078

15

0.01656

GO:0034702

ion channel complex

27/906

323/22283

0.0003452

0.01747

0.01505

27

0.0298

GO:0099060

integral component of postsynaptic specialization membrane

11/906

80/22283

0.0003811

0.01747

0.01505

11

0.01214

GO:0090665

glycoprotein complex

6/906

25/22283

0.0004049

0.01747

0.01505

6

0.006623

GO:0032588

trans-Golgi network membrane

17/906

166/22283

0.0004447

0.01782

0.01535

17

0.01876

GO:0098984

neuron to neuron synapse

30/906

383/22283

0.0005008

0.01818

0.01565

30

0.03311

GO:0098948

intrinsic component of postsynaptic specialization membrane

11/906

83/22283

0.0005258

0.01818

0.01565

11

0.01214

GO:0005802

trans-Golgi network

27/906

333/22283

0.0005546

0.01818

0.01565

27

0.0298

GO:0098685

Schaffer collateral - CA1 synapse

11/906

84/22283

0.0005832

0.01818

0.01565

11

0.01214

GO:0005891

voltage-gated calcium channel complex

8/906

49/22283

0.0007427

0.02193

0.01889

8

0.00883

GO:0099023

vesicle tethering complex

10/906

74/22283

0.0007981

0.02239

0.01928

10

0.01104

GO:0098982

GABA-ergic synapse

11/906

88/22283

0.0008676

0.02318

0.01996

11

0.01214

GO:0099240

intrinsic component of synaptic membrane

17/906

179/22283

0.001046

0.02668

0.02298

17

0.01876

GO:1902495

transmembrane transporter complex

31/906

421/22283

0.001128

0.02752

0.0237

31

0.03422

GO:0099061

integral component of postsynaptic density membrane

8/906

53/22283

0.001265

0.02958

0.02547

8

0.00883

GO:0032421

stereocilium bundle

9/906

66/22283

0.00135

0.03029

0.02609

9

0.009934

GO:0099699

integral component of synaptic membrane

16/906

168/22283

0.001408

0.03039

0.02617

16

0.01766

GO:0032279

asymmetric synapse

27/906

357/22283

0.00156

0.03242

0.02792

27

0.0298

GO:0099146

intrinsic component of postsynaptic density membrane

8/906

56/22283

0.001822

0.03651

0.03144

8

0.00883

GO:0032420

stereocilium

8/906

57/22283

0.002046

0.03957

0.03408

8

0.00883

GO:0031252

cell leading edge

32/906

457/22283

0.00212

0.03965

0.03415

32

0.03532

GO:0001917

photoreceptor inner segment

9/906

72/22283

0.002501

0.04335

0.03733

9

0.009934

GO:0014069

postsynaptic density

26/906

351/22283

0.00251

0.04335

0.03733

26

0.0287

GO:0097730

non-motile cilium

16/906

178/22283

0.00255

0.04335

0.03733

16

0.01766

GO:0031256

leading edge membrane

17/906

196/22283

0.002772

0.04571

0.03937

17

0.01876

GO:0019897

extrinsic component of plasma membrane

16/906

180/22283

0.002852

0.04571

0.03937

16

0.01766

GO:0099572

postsynaptic specialization

27/906

374/22283

0.002999

0.04674

0.04025

27

0.0298

GO:0034703

cation channel complex

19/906

236/22283

0.003728

0.05642

0.04859

19

0.02097

GO:0016323

basolateral plasma membrane

20/906

254/22283

0.003822

0.05642

0.04859

20

0.02208

GO:0089717

spanning component of membrane

5/906

27/22283

0.004209

0.05912

0.05091

5

0.005519

GO:0001674

female germ cell nucleus

4/906

17/22283

0.004228

0.05912

0.05091

4

0.004415

GO:0034704

calcium channel complex

9/906

78/22283

0.004321

0.05912

0.05091

9

0.009934

GO:0098862

cluster of actin-based cell projections

15/906

172/22283

0.00454

0.06064

0.05222

15

0.01656

GO:0031253

cell projection membrane

27/906

388/22283

0.004913

0.0641

0.05521

27

0.0298

GO:0098791

Golgi apparatus subcompartment

32/906

484/22283

0.005033

0.06417

0.05527

32

0.03532

GO:0009925

basal plasma membrane

21/906

279/22283

0.005184

0.06419

0.05528

21

0.02318

GO:0032045

guanyl-nucleotide exchange factor complex

4/906

18/22283

0.005263

0.06419

0.05528

4

0.004415

GO:0099634

postsynaptic specialization membrane

12/906

128/22283

0.006012

0.07176

0.0618

12

0.01325

GO:1902711

GABA-A receptor complex

4/906

19/22283

0.006455

0.07278

0.06268

4

0.004415

GO:0099569

presynaptic cytoskeleton

3/906

10/22283

0.006487

0.07278

0.06268

3

0.003311

GO:1905103

integral component of lysosomal membrane

3/906

10/22283

0.006487

0.07278

0.06268

3

0.003311

GO:0016328

lateral plasma membrane

8/906

69/22283

0.006764

0.07323

0.06307

8

0.00883

GO:0099055

integral component of postsynaptic membrane

12/906

130/22283

0.006788

0.07323

0.06307

12

0.01325

GO:0043073

germ cell nucleus

8/906

70/22283

0.007371

0.07788

0.06708

8

0.00883

GO:0098839

postsynaptic density membrane

10/906

100/22283

0.007497

0.07788

0.06708

10

0.01104

GO:0031594

neuromuscular junction

8/906

71/22283

0.00802

0.0818

0.07045

8

0.00883

GO:0016342

catenin complex

5/906

32/22283

0.008883

0.08899

0.07664

5

0.005519

GO:0098936

intrinsic component of postsynaptic membrane

12/906

135/22283

0.009075

0.08902

0.07667

12

0.01325

GO:0032426

stereocilium tip

4/906

21/22283

0.009346

0.08902

0.07667

4

0.004415

GO:0005770

late endosome

23/906

332/22283

0.00942

0.08902

0.07667

23

0.02539

GO:0098687

chromosomal region

28/906

428/22283

0.009521

0.08902

0.07667

28

0.03091

GO:0030863

cortical cytoskeleton

11/906

120/22283

0.009798

0.09011

0.07761

11

0.01214

GO:0016529

sarcoplasmic reticulum

8/906

74/22283

0.01022

0.09135

0.07867

8

0.00883

GO:0045178

basal part of cell

21/906

297/22283

0.01026

0.09135

0.07867

21

0.02318

GO:0016528

sarcoplasm

9/906

90/22283

0.0109

0.09233

0.07952

9

0.009934

GO:0060077

inhibitory synapse

4/906

22/22283

0.01106

0.09233

0.07952

4

0.004415

GO:0030062

mitochondrial tricarboxylic acid cycle enzyme complex

3/906

12/22283

0.01119

0.09233

0.07952

3

0.003311

GO:0031166

integral component of vacuolar membrane

3/906

12/22283

0.01119

0.09233

0.07952

3

0.003311

GO:0031310

intrinsic component of vacuolar membrane

3/906

12/22283

0.01119

0.09233

0.07952

3

0.003311

GO:0001650

fibrillar center

14/906

174/22283

0.0118

0.09554

0.08228

14

0.01545

GO:0097731

9+0 non-motile cilium

12/906

140/22283

0.01192

0.09554

0.08228

12

0.01325

GO:0001726

ruffle

15/906

194/22283

0.01316

0.1025

0.08829

15

0.01656

GO:0031902

late endosome membrane

15/906

194/22283

0.01316

0.1025

0.08829

15

0.01656

GO:0044545

NSL complex

3/906

13/22283

0.01411

0.1085

0.09342

3

0.003311

GO:0031514

motile cilium

18/906

262/22283

0.02152

0.1632

0.1405

18

0.01987

GO:1902710

GABA receptor complex

4/906

27/22283

0.02262

0.1692

0.1457

4

0.004415

GO:0005923

bicellular tight junction

11/906

136/22283

0.02308

0.1704

0.1467

11

0.01214

GO:0043034

costamere

3/906

16/22283

0.02525

0.1815

0.1564

3

0.003311

GO:0098831

presynaptic active zone cytoplasmic component

3/906

16/22283

0.02525

0.1815

0.1564

3

0.003311

GO:0031527

filopodium membrane

4/906

28/22283

0.02556

0.1815

0.1564

4

0.004415

GO:0000781

chromosome, telomeric region

14/906

193/22283

0.02649

0.1858

0.16

14

0.01545

GO:0032587

ruffle membrane

9/906

106/22283

0.02877

0.1993

0.1716

9

0.009934

GO:0070160

tight junction

11/906

141/22283

0.02913

0.1993

0.1717

11

0.01214

GO:0045239

tricarboxylic acid cycle enzyme complex

3/906

17/22283

0.02975

0.2011

0.1732

3

0.003311

GO:0043296

apical junction complex

12/906

160/22283

0.03052

0.2019

0.1739

12

0.01325

GO:0044304

main axon

7/906

74/22283

0.0306

0.2019

0.1739

7

0.007726

GO:0005930

axoneme

12/906

161/22283

0.03181

0.2075

0.1787

12

0.01325

GO:0097014

ciliary plasm

12/906

162/22283

0.03314

0.2137

0.184

12

0.01325

GO:0019898

extrinsic component of membrane

21/906

335/22283

0.03368

0.2147

0.1849

21

0.02318

GO:0043083

synaptic cleft

3/906

18/22283

0.03465

0.2163

0.1863

3

0.003311

GO:0035097

histone methyltransferase complex

7/906

76/22283

0.03471

0.2163

0.1863

7

0.007726

GO:0030136

clathrin-coated vesicle

18/906

279/22283

0.03689

0.2255

0.1942

18

0.01987

GO:0034707

chloride channel complex

6/906

61/22283

0.0371

0.2255

0.1942

6

0.006623

GO:0034705

potassium channel complex

8/906

94/22283

0.03752

0.2255

0.1942

8

0.00883

GO:0030669

clathrin-coated endocytic vesicle membrane

10/906

129/22283

0.03779

0.2255

0.1942

10

0.01104

GO:0030027

lamellipodium

15/906

223/22283

0.03948

0.2332

0.2008

15

0.01656

GO:0044214

spanning component of plasma membrane

3/906

19/22283

0.03994

0.2334

0.201

3

0.003311

GO:0042641

actomyosin

7/906

80/22283

0.04399

0.2544

0.2191

7

0.007726

GO:0000793

condensed chromosome

18/906

286/22283

0.04514

0.2584

0.2225

18

0.01987

GO:0033276

transcription factor TFTC complex

3/906

20/22283

0.04561

0.2584

0.2226

3

0.003311

GO:0042613

MHC class II protein complex

8/906

98/22283

0.04618

0.2591

0.2231

8

0.00883

[1] “”


These plots show connections among categories:

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted _p_ value.

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted p value.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

4.2 Disease Ontology

Here it is a barplot of most significantly enriched DO categories.

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The most significant category was ‘autism spectrum disorder’.

4.3 Network of Cancer Genes

Here it is a barplot of most significantly enriched NCG categories.

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The most significant category was clear_cell_renal_cancer.